From owner-biophysics@net.bio.net Sun Jun 01 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!feeder.chicago.cic.net!newsspool.doit.wisc.edu!news.doit.wisc.edu!bmv.bocklabs.wisc.edu!user From: none (Me) Newsgroups: bionet.biophysics Subject: gradient fractionators Followup-To: bionet.biophysics Date: Mon, 02 Jun 1997 15:41:14 -0600 Organization: My Place Lines: 11 Message-ID: NNTP-Posting-Host: bmv.bocklabs.wisc.edu Mime-Version: 1.0 Content-Type: text/plain; charset=ISO-8859-1 Content-Transfer-Encoding: 8bit Dear Netters; My lab is in the market for a good, modern density gradient fractionator. Any advice, bad experiences, good ones? I've been using an old ISCO unit, with a optical detector and hooked up to an even more antiquated Gilson fraction collector...the OD tracings look great; the resolution of the fractions and the correlation of peaks in OD to fractions is worse. Any help is appreciated! Please email as I don't check this group all that often :) -Micky Krol makrol@students.wisc.edu From owner-biophysics@net.bio.net Sun Jun 01 23:00:00 1997 Path: biosci!rutgers.rutgers.edu!gatech!news-out.communique.net!communique!hunter.premier.net!news.maxwell.syr.edu!howland.erols.net!worldnet.att.net!news.u.washington.edu!mnr From: mnr@u.washington.edu (Mark N. Rand) Newsgroups: bionet.biophysics Subject: PTI ImageMaster 2 software Date: Mon, 02 Jun 1997 11:59:54 -0700 Organization: University of Washington Lines: 15 Message-ID: NNTP-Posting-Host: 128.95.211.102 Mime-Version: 1.0 Content-Type: text/plain; charset=ISO-8859-1 Content-Transfer-Encoding: 8bit X-Newsreader: Yet Another NewsWatcher 2.3.1 We'd appreciate hearing from anyone who has recently purchased a PTI ratiometric imaging system. We own two PTI systems which use DeltaRAM monochromators and Photometrics Sensys 1400 CCD cameras controlled by ImageMaster 2.0 software. It would be useful to "compare notes" with other users, especially with regard to the software. Thanks for any and all replies. Cheers, Mark N. Rand, Ph.D. Neurology Department, University of Washington Seattle, WA email: mnr@u.washington.edu From owner-biophysics@net.bio.net Mon Jun 02 23:00:00 1997 Path: biosci!agate!spool.mu.edu!uwm.edu!chi-news.cic.net!su-news-hub1.bbnplanet.com!news.bbnplanet.com!newshub2.home.com!news.home.com!howland.erols.net!newsfeed.internetmci.com!masternews.telia.net!newssrv.ita.tip.net!i2unix!news1.mclink.it!usenet From: Enzo Di Giulio Newsgroups: bionet.biophysics Subject: on the concept of order in physics Date: Tue, 03 Jun 1997 07:39:16 -0700 Organization: MC-link The World On Line Lines: 693 Message-ID: <33942C94.529E@mclink.it> NNTP-Posting-Host: pgw-147.mclink.it Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: quoted-printable X-Mailer: Mozilla 2.0 (Win16; I) Content-Disposition: inline; filename="ORDER.TXT" Note. = This is the ASCII conversion of the previous posting to newsgroup bionet. biophysics 'On the notion of order in physics' for which I suggested down- loading file ORDER.DOC from URL 193.205.231.73, where the MSWord file = contains the figure quoted hereunder. = In this ASCII edition mathemathical symbols (Greek letters) have been shown= = in full letters (alpha, delta,...) and the figure has been given as the = Turbo C program that generated it. Running this program two segmented = patterns are shown, each one with point electric charges at its vertices. The two face each other in the network of lines of force pertaining to the = electrostatic field chosen as an example, looking somewhat like spider and = prey in a cobweb. ---------------------------------------------------------------------------= - ---------------------------------------------------------------------------= - = The notion of order in physics. ------------------------------ 1. Foreword. -------- On the meaning of order and disorder in different contexts discussions = have been long and profound. In a very general way a set of objects can be = spacially ordered in patterns (e.g. the pieces of furniture in a restaurant= ) and = a group of events can be ordered in a time sequence (e.g. a housewife's cho= res = in an ordinary morning: cleaning, washing, shopping...). In physics, of cou= rse, = a more precise definition is needed. For clarity, we will focus here on tim= e- indipendent situations. If the objects can be considered equal (e.g. the pages of a book) a = simple ordering criterion is numbering. If the objects are not numerable, = sometimes we can still recognize a "regular" order (e.g. a military unit on= = parade). But the pieces of furniture of the restaurant follow a "non regul= ar" = sort of order that is hard to describe. Clearly, it is the second class of objects that fascinated ancient = geometers. As a matter of fact in physics for a long time the abstract noti= on of = order was associated with the kind of order found in crystals, with arrays = of = ions or molecules following clear-cut rules of simmetry. But then it becam= e = necessary to extend the concept of order to other patterns, including the k= ind = of order one finds in living organisms. = One can take that there is an order for each type of environment. = Here we shall leave aside the cases in which order is born from a = mental attitude, as in the example of the furniture, and shall concentrate = on = material structures. In these order is the result of forces acting on objec= ts, = force fields being mostly determinant. The field of gravity acting on a liq= uid = normally generates a "plane order", but rotation of the same liquid brings = forth, through the added centrifugal field, a "parabolic order". = 2. Iono-electric fields. -------------------- A kind of diversified and meaningful order can be realized in systems = of mutually linked electric charges, acted upon by an electrostatic field. = Links = are supposed to be insulating bars, freely rotating around their neighbor's= = axes. The field potential does not obey Laplace's condition. As it will be remembered, this condition is expressed by the second = order differential equation in the potential function phi(x,y,z): delta[(phi)(x,y,z)] =3D 0. The solutions of this equation are the widely investigated 'harmonic' = functions that govern fields in a dielectric medium (or vacuum). Their = characteristic property is (as in Coulomb's Law, according to which potenti= al = varies with the inverse square of distance) that, apart from boundary = conditions, they cannot pass through maxima or minima. Quite different is the behaviour of fields acting across a space charge, = particularly those that exist in an ionic environment, like a saline soluti= on = ("iono-electric" fields). In this case the potential function is subject to= the = Poisson equation: delta[phi(x,y,z)] =3D -(1/eps) ro(x,y,z) , in which eps is the medium permittivity and ro(x,y,z) is the density of the= space charge (ion density in iono-electric fields). For this equation exact solutions can be found only in very special = cases implying drastic simplifications. This fact may justify the relativel= y = modest interest raised in students as opposed to the passionate research = "classical" mathematicians devoted to harmonic functions. In many problems = the ro(x,y,z) function, the socalled "known" function, is itself dependent = on = the potential function phi(x,y,z) and must be determined through the = equation. From a practical point of view it is to be remarked that most functions = of elementary mathematics are of the "poissonian" type(*). = What is specially interesting about the solutions of the Poisson = equation id the fact that they are not necessarily deprived of maxima or = minima. The meaning of this will be seen when considering the equilibria of= a = class of clusters called electroscalenes. 3. Electroscalenes. --------------- In connection with iono-electric fields, particularly interesting = "objects" are clusters of electric charges, in which charges are joined by = insulating, rigid, freely rotating links. Such structures can be quite flex= ible in = three-dimensional space(**). The possible analogy with heteroatomic = molecules will be evident to any chemist: but in the present context we sh= all = not depart from the abstract notion of linked clusters of electric charges.= Since the most significant developments regard irregular (non- symmetric) architectures, these cluster can be called, using the greek roo= t, = "electro-scalenes", or simply scalenes. According to a fundamental theorem of Electrostatics (Earnshaw's = theorem), in a dielectric (no space charge) field a structure of the scalen= e type = can only move towards an electrode. In fact its potential energy W is the s= um = of so many contributions as there are charges: W =3D q1 V(P1) + q2 V(P2) + ...... where P1, P2 , ... are the positions of charges q1, q2, ... As a linear = combination of harmonic functions, W is itself a harmonic function and = cannot have a minimum. This means that an equilibrium position (zero force= , = zero moment) in the space delimited by electrodes can not exist. On the contrary, in a space-charge environment equilibrium is = possible, that is a scalene may assume a definite equilibrium position, wit= h a = definite configuration. In schematic cases it is possible to express the = conditions that must hold for this to be true: they link in a specific way = the = parameters of the scalene (charges, links, angles) with the parameters of t= he = field function. When the field hosts more than one scalene, positions and = configurations are defined for each one of them. One can say that the field= = has imposed a specific "order" on the clusters. 4. Equilibria. ---------- How an equilibrium position is achieved by (one or more) scalenes can = be illustrated by a simple example. For the sake of brevity (that is in order to avoid complex calculations = that might tend to obscure the interplay of factors ) we shall consider a p= lane = (two-dimensional) structure. Two electroscalenes of respectively 5 and 7 = charges are subject to a field E whose components are Ex, Ey. = The parameters are: a) scalene 1: charges: = c[0]=3D1.15;c[1]=3D0.65;c[2]=3D0.0;c[3]=3D1.30;c[4]=3Dc[2]=3D0.0;c[5]=3D-0= =2E60;c[6]=3D0.80; links: d[0]=3D0;d[1]=3D4.5;d[2]=3D1.2;d[3]=3D2.7;d[4]=3Dd[3];d[5]=3D2.1;d[6]=3D2.= 7; angles: = alpha[0]=3D0;alpha[1]=3D0;alpha[2]=3D1.5*PI/2;alpha[3]=3D-1.2*PI/2; = alpha[4]=3DPI;alpha[5]=3D-PI/2;alpha[6]=3DPI/2; b) scalene 2: charges: c[0]=3D-.85;c[1]=3D0.45;c[2]=3D.30;c[3]=3D1.30;c[4]=3D-.75;c[5]=3D-.60;c[6= ]=3D1.10; links: = d[0]=3D0;d[1]=3D3.9;d[2]=3D1.8;d[3]=3D2.7;d[4]=3Dd[3];d[5]=3D2.3;d[6]=3D2.= 7; angles: alpha[0]=3D0;alpha[1]=3D0;alpha[2]=3D1.5;alpha[3]=3D-1.5;alpha[4]=3D2.9;al= pha[5]=3D- PI/2alpha[6]=3DPI/2; c) field: = Ex =3D a+ux2 = Ey =3D b+vy . with a=3D.7; u=3D.3; b=3D.35; v=3D-0.8 . From these it is easy to numerically calculate(***) the total force F = and the momentum M acting on each scalene (M conventionally taken respect to the first charge of each sequence) and look for positions in the= = plane that nullify force and moment for both. For a stable equilibrium it i= s = also necessary that the derivatives of F to x and y are negative and the = derivative of M to alpha is positive. The result is shown in the figure. Both scalenes lie in stable = equilibrium positions. - No attempt has been made to take into account the = deformation of the field pattern brought about by the presence of the first= = scalene when calculating the equilibrium of the second. In order to give fu= ll = evidence to the effect of field forces, Coulomb forces between the charges = of = the two scalenes have also been neglected. = As it is, the figure shows how a definite spacial relationship has been = imposed by the field on the two scalenes. This is highly specific, a -------- different relationship becoming possible only if one or more parameters are= = changed. A particular kind of order has been created. ____________________________________________ ____________________________________________ (*) For instance, in one-dimensional situations the only harmonic function = (calling a, b two constants) is: = phi =3D a x+b --> d(phi)/dx =3D a; d2(phi)/dx2=3D0 = (which in electrical terms means the voltage in a dielectric medium between= = parallel plates), whereas all the other polynomial functions are poissonian= =2E f.i: = = phi =3D a x2 + b x + c --> d(phi)/dx =3D 2ax +b; = d2(phi)/dx2 =3D 2a = = (**) In two-dimensional examples, if alpha is the angle between two adjacen= t = links, only rotations +alpha and -alpha are possible. (***) For each scalene the system of three equations: = Fx =3D 0 ; Fy =3D 0 ; M =3D 0 can be solved by means of the Newton-Ralph method. In the figure the = conditions for stability: dFx/dx<0 ; dFy/dy <0; dM/d(alpha)>0 were met by trial and error, changing one or more parameters. ______________________________________ ______________________________________ = The following is the Turbo C file that generates the figure : #include #include #include #define DX .05 #define CONTMAX 20 #define XMAX 10 #define DELTAPAR -.1 #define N 7 /* eptapole/pentapole with 2 null charges *= / #define KX 20 #define KY 20 #define TITOLO " Scalene in field E(x,y) " int i,ss,tt,cont=3D0,cont1=3D0,cicli=3D0; double x,y,alfa,f,g,h,fx,fy,fa,gx,gy,ga,hx,hy,ha; double a,b,u,v,r,Ex,Ey,car[N],dist[N],ang[N]; /*scalene and field = parameters*/ = double xinf,xsup,xiniz,yiniz,alfainiz;/*limits of x in lines of force*/ double xtot=3D0,ytot=3D0,angsum=3D0; double p1,p2,p3,q1,q2,q3,r1,r2,r3,det; /*coeff.of Jacobian and = = determinant*/ double A1,A2,A3,B1,B2,B3,C1,C2,C3; /*coeff.of inverted Jacobian */ double ff=3D1,gg=3D1,hh=3D1; void grafinit(),freccia(),dati1(),dati2(),ricerca(),nuovo_ciclo(),disegno_s= cal(); void out_emergenza(),out_normale(),linee_di_forza(double,double); double forza_mom(),derivate(),determinante(),campo(); char buff1[80],buff2[80],buff3[80],buff4[80],buff5[80],buff6[80],buff7[80];= main() = /*****************************************************************/ { grafinit(); campo(); v=3D-.6; /* v =3D initial value, changed in new cycle */ dati1();freccia(b/a); x=3D1.8;y=3D-13;alfa=3D2; /* initial values, arbitrarily ch= osen */ xiniz=3Dx;yiniz=3Dy;alfainiz=3Dalfa; sprintf(buff6,"v=3D%6.2f;xo=3D%6.2f;yo=3D%6.2f;alfao=3D%6.2f; deltapar=3D%= 6.2f",\ v,xiniz,yiniz,alfainiz,DELTAPAR); outtextxy(30,85,buff6); linee_di_forza(5,-10); ricerca(); getch(); closegraph();return; } void dati1() = /**************************************************************/ { int i; car[0]=3D-1.15;car[1]=3D0.65;car[2]=3D0.0;car[3]=3D1.30;car[4]=3Dcar[2];ca= r[5]=3D-.60;\ car[6]=3D.80; = dist[0]=3D0;dist[1]=3D4.5;dist[2]=3D1.2;dist[3]=3D2.7;dist[4]=3Ddist[3];dis= t[5]=3D2.1;dist[6]=3D 2.7; ang[0]=3D0;ang[1]=3D0;ang[2]=3D1.5*M_PI/2;ang[3]=3D-1.2*M_PI/2; ang[4]=3DM_PI;ang[5]=3D-M_PI/2;ang[6]=3DM_PI/2; setcolor(1); sprintf(buff4,"c1,...c7=3D %6.2f%6.2f%6.2f%6.2f%6.2f%6.2f%6.2f",\ car[0],car[1],car[2],car[3],car[4],car[5],car[6]); outtextxy(200,45,buff4); } void dati2() = /**************************************************************/ { int i; cont1=3Dcont1+1; car[0]=3D-.85;car[1]=3D0.45;car[2]=3D.30;car[3]=3D1.30;car[4]=3D-.75;car[5= ]=3D-.60;\ car[6]=3D1.10; dist[0]=3D0;dist[1]=3D3.9;dist[2]=3D1.8;dist[3]=3D2.7;dist[4]=3Ddist[3];di= st[5]=3D2.3;\ dist[6]=3D2.7; ang[0]=3D0;ang[1]=3D0;ang[2]=3D1.5;ang[3]=3D-1.5;ang[4]=3D2.9;ang[5]=3D-M_= PI/2;\ ang[6]=3DM_PI/2; setcolor(1); sprintf(buff7,"c1,...c7=3D %6.2f%6.2f%6.2f%6.2f%6.2f%6.2f%6.2f",\ car[0],car[1],car[2],car[3],car[4],car[5],car[6]); outtextxy(200,60,buff7); } double campo() = /**********************************************************/ { a=3D.7; u=3D.3; b=3D.35; /* v defined in main */; Ex =3D a+u*x*x; Ey =3D b+v*y; return Ex; } void ricerca() = /**********************************************************/ { do { cont=3Dcont+1; forza_mom(); derivate(); determinante(); out_emergenza(); /*circle(ss+KX*x,tt-KY*f,1);circle(ss+KX*x,tt-KY*g,1);circle(ss+KX*x,tt- KY*h,1);*/ out_normale(); ff=3Df;gg=3Dg;hh=3Dh; x =3D x -(A1*f+A2*g+A3*h); /* Iteration = */ y =3D y -(B1*f+B2*g+B3*h); alfa=3D alfa -(C1*f+C2*g+C3*h); } while(xXMAX: x,y,alfa =3D %8.3f %8.3f %8.3f",x,y,alfa); } void out_normale() = /*******************************************************/ { int i; setcolor(0); outtextxy(20,400,buff5); setcolor(1); if(fabs(f)<.001 && fabs(g)<.001 && fabs(h)<.001) { setcolor(0); outtextxy(240,120+8*cont1,buff2);outtextxy(240,140+8*cont1,buff3); setcolor(1); sprintf(buff2,"x,y,alpha, final :%6.2f%6.2f%6.2f = [%6.2f=9B]",x,y,alfa,alfa*180/M_PI); outtextxy(240,120+8*cont1,buff2); sprintf(buff3,"stability: fx,gy,ha =3D %6.2f%6.2f%6.2f",fx,gy,ha); outtextxy(240,140+8*cont1,buff3); disegno_scal(); sprintf(buff5,"Number of cycles: %2d",cicli);outtextxy(20,400,buff5); cicli=3Dcicli+1; nuovo_ciclo(); } } void disegno_scal() = /*******************************************************/ { angsum=3D0; setcolor(1); moveto(ss+KX*x,tt-KY*y); /* profile of scalene = */ for(i=3D0;i0) ht =3D ht + car[i]*Ex*dist[i]*sin(alfa+angsum) - \ car[i]*Ey*dist[i]*cos(alfa+angsum); } f=3Dft; g=3Dgt; h=3Dht; x=3Dxx;y=3Dyy; return f; } double derivate() = /********************************************************/ { double ftmp,gtmp,htmp; forza_mom(); ftmp=3Df; gtmp=3Dg; htmp=3Dh; x=3Dx+DX;forza_mom(); fx=3D(f-ftmp)/DX; gx=3D(g-gtmp)/DX, hx=3D(h-htmp)/DX; x=3Dx-DX; y=3Dy+DX;forza_mom(); fy=3D(f-ftmp)/DX; gy=3D(g-gtmp)/DX, hy=3D(h-htmp)/DX; y=3Dy-DX; alfa=3Dalfa+DX;forza_mom(); fa=3D(f-ftmp)/DX; ga=3D(g-gtmp)/DX, ha=3D(h-htmp)/DX; alfa=3Dalfa-DX; p1=3Dfx; q1=3Dfy; r1=3Dfa; p2=3Dgx; q2=3Dgy; r2=3Dga; p3=3Dhx; q3=3Dhy; r3=3Dha; return fx; } double determinante() = /****************************************************/ { A1=3D q2*r3-r2*q3; A2=3D-(q1*r3-r1*q3); A3=3D q1*r2-r1*q2; B1=3D-(p2*r3-r2*p3); B2=3D p1*r3-r1*p3; B3=3D-(p1*r2-r1*p2); C1=3D p2*q3-q2*p3; C2=3D-(p1*q3-q1*p3); C3=3D p1*q2-q1*p2; det=3Dp1*A1+p2*A2+p3*A3; A1=3DA1/det;A2=3DA2/det;A3=3DA3/det; B1=3DB1/det;B2=3DB2/det;B3=3DB3/det; C1=3DC1/det;C2=3DC2/det;C3=3DC3/det; return det; } void out_emergenza() = /*****************************************************/ { if(f/ff<0 && (fabs(fabs(f/ff)-1))<.05 && fabs(f)>.5 && cont>CONTMAX) { printf("\nExit f! x,y,alfa /%4.2f degrees)=3D \ %8.2f%8.2f%8.2f",alfa*180/M_PI,x,y,alfa); exit(0); } if(g/gg<0 && (fabs(fabs(g/gg)-1))<.05 && fabs(g)>.5 && cont>CONTMAX) { printf("\nExit g! x,y,alfa (%4.2f degrees) =3D \ %8.2f%8.2f%8.2f",alfa*180/M_PI,x,y,alfa); exit(0);} if(h/hh<0 && (fabs(fabs(h/hh)-1))<.05 && fabs(h)>.5 && cont>CONTMAX) { printf("\nExit h! x,y,alfa (%4.2f degrees) =3D \ %8.2f%8.2f%8.2f",alfa*180/M_PI,x,y,alfa); exit(0);} return; } void freccia() = /***********************************************************/ { double mu; campo(); mu=3Datan(Ey/Ex); line(ss+KX*x,tt-KY*y,ss+KX*(x+Ex),tt-KY*(y+Ey)); line(ss+KX*(x+Ex),tt-KY*(y+Ey),ss+KX*(x+Ex)-10*cos(mu-M_PI/6),\ tt-KY*(y+Ey)+10*sin(mu-M_PI/6)); line(ss+KX*(x+Ex),tt-KY*(y+Ey),ss+KX*(x+Ex)-10*cos(mu+M_PI/6),\ tt-KY*(y+Ey)+10*sin(mu+M_PI/6)); } void grafinit() = /********************************************************/ { int i,j,nx,ny,nnx,neg=3D10*KX; /* give neg preferred value */ int gd=3DDETECT,gm=3D0; int xa=3D10,ya=3D10,xb=3D600,yb=3D250; char titolo[]=3DTITOLO; ss=3Dxa+25+neg; tt=3Dyb-25; nx=3D(xb-75)/KX; ny=3Dtt/KY; initgraph(&gd,&gm,"c:\\tc"); setbkcolor(14);setcolor(1); rectangle (xa,ya,xb,yb); outtextxy( ss+20,ya+10,titolo); outtextxy((xb-100),(tt+5),"x"); line( ss,20,ss,tt);line(ss,tt,ss+(xb-75),tt); for(i=3D0;i<=3Dnx;i++) line(ss+KX*i,tt,ss+KX*i,tt-5); nnx=3Dnx/10; for(j=3D0;j<=3Dnnx;j++)line(ss+KX*10*j,tt,ss+KX*10*j,tt-10); for(i=3D0;i<=3Dny;i++) line(ss,(tt-KY*i),ss+5,(tt-KY*i)); } = ___________________________________________________ ___________________________________________________ Enzo Di Giulio (former) Research Manager, Chemical Industry Via L.B.Alberti 5 20149, Milan, Italy e_mail mc5581@mclink.it From owner-biophysics@net.bio.net Mon Jun 02 23:00:00 1997 Path: biosci!agate!hammer.uoregon.edu!ais.net!cpk-news-hub1.bbnplanet.com!cam-news-feed3.bbnplanet.com!news.bbnplanet.com!news.inc.net!news.itis.com!pkuzmic From: pkuzmic@biokin.com (Petr Kuzmic) Newsgroups: bionet.biophysics Subject: Freeware for kinetic data analysis Date: Tue, 03 Jun 1997 09:06:01 GMT Organization: BioKin Consulting Lines: 23 Sender: reguser@wa9.itis.com Message-ID: <5n0mf9$6j9$4@bill.itis.com> Reply-To: pkuzmic@biokin.com NNTP-Posting-Host: wa9.itis.com X-Newsreader: News Xpress 2.01 Program DYNAFIT for statistical analysis of biochemical kinetic data (enzymology, receptor-ligand interactions) was updated to ver. 2.16. It is a freeware, reviewed this week in a Software Alert column in http://biomednet.com/hmsbeagle/ The program runs under DOS, Win95(DOS box), MacOS7.5(PowerMac), SGI, DEC Alpha, and IBM-RISC/System-6000. To quote the reviewer from the Software Alert, "If you do any kind of kinetic data analysis as part of your research program, be sure to download DynaFit from the BioKin Web site" http://biokin.com Petr Kuzmic pkuzmic@biokin.com ------------------------------------------------------- Petr Kuzmic, Ph.D. * http://www.biokin.com B i o K i n, Ltd. * P.O. Box 8336 * Madison WI 53708 voice 608.256.4790 * fax 608.256.1269 From owner-biophysics@net.bio.net Tue Jun 03 23:00:00 1997 Newsgroups: bionet.biophysics Path: biosci!daresbury!uninett.no!news-feed.inet.tele.dk!news.maxwell.syr.edu!news-peer.sprintlink.net!news-pull.sprintlink.net!news-in-east.sprintlink.net!news.sprintlink.net!Sprint!129.174.1.8!portal.gmu.edu!hearst.acc.Virginia.EDU!murdoch!watt.seas.Virginia.EDU!cc9m From: cc9m@watt.seas.Virginia.EDU (Chi-Kai Chen) Subject: Re: help in developing model X-Nntp-Posting-Host: watt.seas.virginia.edu Message-ID: Sender: usenet@murdoch.acc.Virginia.EDU Organization: uva References: <199705310706.MAA26854@latina> Date: Wed, 4 Jun 1997 15:20:33 GMT Lines: 21 YOur problem appears to be analogous random walks in space. Theory in this perspective has been extensively studied. The probability you wanted is the probability of your sperm waners, given a specific distance away from the egg, towards the egg; multipled by the probability of reaction kinetics for the subsequent biological reaction. To find the contact probability for your sperm to encounter the egg from a specific distance via executing rand walks, good references are: 1)Fisher, E.S., and D. A. Lauffenburger, (1987), Biophys. J. vol. 51: 705-716 2)Berg, H. C. and E. M. Purcell, (1977), Biophys. J., vol. 20: 193-219. good luck! From owner-biophysics@net.bio.net Tue Jun 03 23:00:00 1997 Path: biosci!agate!spool.mu.edu!howland.erols.net!newsfeed.internetmci.com!masternews.telia.net!newssrv.ita.tip.net!venere.inet.it!urano.inet.it!news@inet.it From: Gianfranco Zilio Newsgroups: bionet.biophysics Subject: On the concept of order in physics Date: Wed, 04 Jun 1997 20:01:10 +0200 Organization: ZEROCITY.INTERNET.PROVIER Lines: 10 Message-ID: <3395AD66.6FF1@zerocity.it> Reply-To: gieffe@zerocity.it NNTP-Posting-Host: 194.185.76.108 Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0 (Win95; I) Enzo Di Giulio wrote: I wonder if there is a better way to show figures explaining a text, without passing through C-language(or any other language)programs. Is the newsgroup able, for instance, to handle an Msword text containing one or more figures generated by a C-program and included by a cut-and-paste technique? The problem is not as trivial as it looks. Can anyone be of help? gieffe@zerocity.it From owner-biophysics@net.bio.net Wed Jun 04 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!newsfeed.internetmci.com!news-was.dfn.de!news-fra1.dfn.de!news-koe1.dfn.de!uni-muenster.de!news From: "Timm Filler" Newsgroups: bionet.biophysics Subject: new listserver Date: Thu, 05 Jun 1997 13:57:23 -0700 Organization: Institute of Anatomy Lines: 32 Sender: "Timm Filler" Message-ID: <33972833.237C@uni-muenster.de> NNTP-Posting-Host: anatom04.uni-muenster.de Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit X-Mailer: Mozilla 3.0 (X11; I; IRIX 5.3 IP22) Hallo, da es vielleicht für einige von Ihnen von Interesse sein kann, möchte ich auf einen neuen Listserver aufmerksam machen. Er ist für Anatomen und anatomisch Interessierte kürzlich an der medizinischen Fakultät der WWU eingrichtet worden. Nähere Informationen finden sich unter: http://medweb.uni-muenster.de/institute/anat/list/index.html as it might be of interest for some of you, I wish to point you to a new listserver at the medical faculty of the Westfalian Wilhelms-University. It discusses anatomical and related topics. To subscribe send an e-Mail to Majordomo@medweb.uni-muenster.de with the following body text: subscribe ANATOMIE-D -- Mit freundlichen Gruessen Yours sincerely ******************************************************************* * Dr. T. J. Filler * specialist in anatomy * * Westfaelische Wilhelms-Univ. * phone:*49 251 83 55226 * * Institute of Anatomy * FAX.: *49 251 83 55241 * * Image Analysis Division * e-Mail: filler@ * * Vesaliusweg 2-4 * e-Mail: image.analysis@ * * D-48149 Muenster Germany * e-Mail: Institute.of.Anatomy@ * * ______ _ ______ * domain: uni-muenster.de * /_____/\ / /\/_____/\http://medweb.uni-muenster.de/institute/anat* \/ /\_\// / /\/ /\_\/********************************************* / / / / / / / _/\ /_/ / / / / /_/\_\/ \_\/__/ / / \_\/ /___/ / \___\/ From owner-biophysics@net.bio.net Thu Jun 05 23:00:00 1997 Path: biosci!agate!howland.erols.net!newsfeed.internetmci.com!newsfeed.nacamar.de!news-kar1.dfn.de!news-stu1.dfn.de!news-mue1.dfn.de!news-nue1.dfn.de!uni-erlangen.de!winx03!news From: Christian Ammon Newsgroups: bionet.biophysics Subject: Re: help in developing model Date: Fri, 06 Jun 1997 14:07:10 -0700 Organization: Universit"at W"urzburg Lines: 36 Message-ID: <33987BFE.377D@mail.uni-wuerzburg.de> References: <199705310706.MAA26854@latina> Reply-To: hnok159@mail.uni-wuerzburg.de NNTP-Posting-Host: firewall.kks.uni-wuerzburg.de Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit X-Mailer: Mozilla 3.0C-E-KIT (Win95; I; 16bit) >Jesús Berdugo wrote: > > I'm an embriologist that can't sleep with this problem: > I'm trying to answer this question Wich is the chance of a given sperm to > fertilize an egg. The sperm usually move toward the egg in a straight > forward direction in the fertilization solution ( in vitro models), the I > cuold calculate the chance of collitioon knowing the volume of the reaction > and all the measurements of the egg and the sperm. > This is an interesting problem, but it isnt that easy to solve :-) > The movement of the sperm can be analogued to vectors. Help me using the > best model to make my calculations, this answer will have a profound impact > in prenatal diagnosis and reproductive counseling. > First of all I need more information about the initial setup. Where are the sperms inserted ? Do they have only one direction they can move for the first step? Or is one direction preffered? How big is the volume the sperm can move? And what happens if the sperm reaches these borders? Are destroyed or rejected or so.... You see this isnt easy to solve and you must specify your problem and the boundary conditions. Afterward there are two ways to solve it: analytically (which I would prefer) and numerical simulation. The latter yields funny pictures and the ability to modify the ability of the sperm to modify its direction. E.g. How much is the probability that a sperm changes its direction by an angle of 10, 20 or 30 degree. What does this distribution look like ? Is it gaussian or.... If you specify your problem more detailed then it should be possible to help you. yours Ammon From owner-biophysics@net.bio.net Sun Jun 08 23:00:00 1997 Path: biosci!news.Stanford.EDU!su-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!howland.erols.net!torn!newshost.uwo.ca!julian.uwo.ca!a1234 From: a1234@julian.uwo.ca (m.h. sherebrin) Newsgroups: bionet.biophysics Subject: Canadian Faculty Openings Date: 8 Jun 1997 04:23:10 GMT Organization: University of Western Ontario, London, Ont. Canada Lines: 58 Message-ID: <5ndc3e$amb@falcon.ccs.uwo.ca> NNTP-Posting-Host: panther.uwo.ca FACULTY POSITIONS MEDICAL IMAGING, TISSUE MECHANICS, VASCULAR BIOLOGY, CARDIOVASCULAR BIOPHYSICS, OR RADIOLOGICAL PHYSICS The Department of Medical Biophysics, Faculty of Medicine, University of Western Ontario, in partnership with the University-affiliated institutes, invites applications for three faculty positions to commence July 1997 or soon after, or July 1998. The preferred appointment rank is Assistant Professor, but rank would be commensurate with experience. The Department has a strong research and graduate program, with teaching responsibilities in undergraduate medicine, dentistry, and in Honours Biophysics. Primary consideration will be given to applicants with a strong record of research in medical imaging, tissue mechanics, cardiovascular biophysics, or radiological physics. Applicants will be expected to have a Ph.D., two years of postdoctoral training, a strong record of research, and the potential to develop an independent and externally funded research program. Successful candidates are expected to participate in the undergraduate and graduate teaching programs of the department. Initial appointments will be for three years; they will be limited term, joint appointments, with the possibility of renewal, funded through the University and one of the research institutes affiliated with the University (Lawson Research Institute, Robarts Research Institute, London Health Sciences Centre, or London Regional Cancer Centre). Applications, including a curriculum vitae, a brief statement of research interests, and the names of three referees should be sent to: Dr. Peter B. Canham, Professor and Chair, Department of Medical Biophysics, Faculty of Medicine, University of Western Ontario, London, Ontario, Canada, N6A 5C1. Positions are subject to budget approval. In accordance with Canadian immigration requirements, this advertisement is directed to Canadian citizens and permanent residents of Canada. The University of Western Ontario is committed to employment equity, welcomes diversity in the workplace, and encourages applications from all qualified individuals, including women, members of visible minorities, aboriginal persons, and persons with disabilities. Closing date for applications: June 15, 1997. EMAIL CONTACT: pcanham@julian.uwo.ca April 1997 (revised) -- Marvin H. Sherebrin, Associate Professor Medical Biophysics Dept., U. Western Ontario London, Canada N6A 5C1 email: sherebrin@uwovax.uwo.ca From owner-biophysics@net.bio.net Sun Jun 08 23:00:00 1997 Path: biosci!news.Stanford.EDU!su-news-hub1.bbnplanet.com!news.bbnplanet.com!xfer.kren.nm.kr!newsfeed.kornet.nm.kr!news.postech.ac.kr!ppjun From: ppjun@kreutzer.postech.ac.kr (Pyeong Jun Park) Newsgroups: bionet.biophysics Subject: POSTDOC POSITION: Theoreticdal Statistical and Biological Physics Date: 9 Jun 1997 02:16:46 GMT Organization: POSTECH, Pohang, Korea Lines: 24 Message-ID: <5nfp2e$gna@news.postech.ac.kr> NNTP-Posting-Host: kreutzer.postech.ac.kr X-Newsreader: TIN [version 1.2 PL2] A Postdoctoral Position in Statistical/Biological Physics I am looking for a postdoc who will use statistical physics approach for biological problems involving membranes and polymers. The backgrounds in soft matter (complex fluids) physics and/or stochastic processes would be adequate. We are currently working on polymer (protein)-membrane interactions, their conformations and dynamics; stochastic models of protein and ion transport through membranes, and associated channel conformational transitions. The position, available immediately, pays 1,000,000 - 1,200,000 wons per month. If interested, contact me. Wokyung Sung, Professor, Department of Physics, Pohang University of Science & Technology, Pohang, KOREA, e-mail : sung@galaxy.postech.ac.kr, Tel : +82-02-0562-279-2061, Fax : +82-02-0562-279-3099 From owner-biophysics@net.bio.net Sun Jun 08 23:00:00 1997 Path: biosci!news.Stanford.EDU!su-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!howland.erols.net!newsxfer.itd.umich.edu!news.mtu.edu!msunews!not-for-mail From: Ma Hongbao Newsgroups: bionet.biophysics Subject: people Date: Mon, 09 Jun 1997 00:29:20 -0400 Organization: Michigan State University, East Lansing, MI 48823, US Lines: 1 Message-ID: <339B86A0.A13@pilot.msu.edu> Reply-To: hongbao@pilot.msu.edu NNTP-Posting-Host: 35.8.145.46 Mime-Version: 1.0 Content-Type: text/plain; charset=gb2312 Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01Gold (WinNT; I) LIfe is a process of biophysics. From owner-biophysics@net.bio.net Sun Jun 08 23:00:00 1997 Path: biosci!news.Stanford.EDU!su-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeed.direct.ca!news.uoregon.edu!news.rediris.es!news.upc.es!lilith.uab.es!newsmgr From: Carles Borrego i Moré Newsgroups: bionet.biophysics Subject: Deconvolution spectra, please help Date: Mon, 09 Jun 1997 14:51:07 +0000 Organization: Universitat de Girona Lines: 15 Distribution: inet Message-ID: <339C185B.1E96@xamba.udg.es> Reply-To: ieacbm@xamba.udg.es NNTP-Posting-Host: chlorobium.udg.es Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01 (Macintosh; I; 68K) I'm currently working on photosynthetic pigments of green sulfur bacteria and I'm interested on resolving (deconvoluting) absorption spectra of several bacteriochlorophylls. Does anyone know how to do it? Does anyone know any software to perform deconvolution spectra? Please send e-mail to: ieacbm@xamba.udg.es Or post to bionet.biophysics Thanks Dr. Carlos Borrego Lab. Microbiology University of Girona, Spain From owner-biophysics@net.bio.net Mon Jun 09 23:00:00 1997 Path: biosci!rutgers!gatech!csulb.edu!hammer.uoregon.edu!newsfeed.internetmci.com!europa.clark.net!disgorge.news.demon.net!demon!dispatch.news.demon.net!demon!rill.news.pipex.net!pipex!oleane!jussieu.fr!inetway.net!news1.isdnet.net!usenet From: "Ph. et J. Gascuel" Newsgroups: bionet.biophysics Subject: Life : origin and evolution Date: Tue, 10 Jun 1997 15:13:10 +0000 Message-ID: <339D6F06.1FB2@hol.fr> Reply-To: ph.gascuel@hol.fr NNTP-Posting-Host: ppp26.stq.hol.fr Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01Gold [fr] (Macintosh; I; 68K) Lines: 23 A new theory concerning deterministic chaos and open-system thermodynamics, coupled together with a multi-agent interactive simulation software. Version 25 (6/9/97). 1321 recorded visits since the opening of the site on the 3/18/97. - New version of the Article, with improved organisation of the ideas. - New section "Dialogues with site visitors". - Mac and PC downloadables softwares with improved ergonomy (adjustable speed of execution). -The article presenting the theory, the simulation software user guide, and 44 screen copies fully commented, can all be downloaded on PC or Mac. Site adress : http://wwwperso.hol.fr/~gascuel -- Philippe Gascuel e-mail ph.gascuel@hol.fr tel. 01 69 30 07 44 47 chemin des hauts graviers 91370 Verrieres le buisson France From owner-biophysics@net.bio.net Mon Jun 09 23:00:00 1997 Path: biosci!rutgers!gatech!howland.erols.net!newsfeed.internetmci.com!news-was.dfn.de!news-fra1.dfn.de!news-ge.switch.ch!news.unige.ch!news From: HU Hai-Yan Newsgroups: bionet.biophysics Subject: Job seeking Date: Tue, 10 Jun 1997 15:09:44 +0100 Organization: Geneva Medical Center - Switzerland Lines: 11 Message-ID: <339D6022.2DFF@sunny.unige.ch> Reply-To: hu@sunny.unige.ch NNTP-Posting-Host: 129.194.96.165 Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0 (Macintosh; I; PPC) I am an electrophysiologist just obtained a Ph.D degree (Mai 30) in the University of Geneva, department of physiology from the group of Daniel Bertrand. I am ready to accept different offers from industry or academy to continue to work on the domain of neuroscience, especially in Switzerland. It will be a pleasure to get some information from you! Thanks in advance Hu Hai-yan From owner-biophysics@net.bio.net Tue Jun 10 23:00:00 1997 Path: biosci!MSU.EDU!RNREUSCH From: RNREUSCH@MSU.EDU ("Rosetta N. Reusch") Newsgroups: bionet.biophysics Subject: Polyhdroxybutyrate modified proteins Date: 10 Jun 1997 21:58:20 -0700 Organization: MSU Lines: 15 Sender: daemon@net.bio.net Distribution: world Message-ID: <339DC42B.189B9CEB@msu.edu> Reply-To: RNREUSCH@msu, edu@server.mph.msu.edu NNTP-Posting-Host: net.bio.net We find that a number of proteins are modified by short-chain poly(3-hdroxybutyrate) (cPHB). cPHB is invisible to UV and X-ray crystallography and is degraded during Edman sequencing so it has remained undiscovered. We have antibody to synthetic PHB that can be used to identify cPHB modified proteins on Western blots. We also have a great interest in identifying cPHB-conjugated proteins. If you want to know if your protein is modified by cPHB and can spare a few ug, please email me. Rosetta Reusch Associate Professor Dept. Microbiology Michigan State University RNREUSCH@msu.edu From owner-biophysics@net.bio.net Tue Jun 10 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!disgorge.news.demon.net!demon!dispatch.news.demon.net!demon!delos.dra.hmg.gb!server1.netnews.ja.net!server5.netnews.ja.net!daresbury!not-for-mail From: thomas@cicada.berkeley.edu (Thomas Z. Lauritzen) Newsgroups: bionet.biophysics Subject: Protein folding Date: 11 Jun 1997 22:14:57 +0100 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5nn4gh$5gg@mserv1.dl.ac.uk> Original-To: biophys@dl.ac.uk Lines: 9 Does anybody have knowledge of any "ball and stick" models of protein structures? I have found models where each "ball" represent a single amino acid, but are there any models where the different atoms (eventually only backbone) are all individually represented? If you have any information please send it directly to thomas@cicada.berkeley.edu Thanks in advance, Thomas Lauritzen From owner-biophysics@net.bio.net Tue Jun 10 23:00:00 1997 Path: biosci!HAVERFORD.EDU!jdepaula From: jdepaula@HAVERFORD.EDU (Julio de Paula) Newsgroups: bionet.biophysics Subject: unsubscribe Date: 11 Jun 1997 07:06:19 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 3 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net unsubscribe biophys From owner-biophysics@net.bio.net Wed Jun 11 23:00:00 1997 Path: biosci!agate!hammer.uoregon.edu!newsfeed.internetmci.com!news.maxwell.syr.edu!news-was.dfn.de!news-fra1.dfn.de!news-ge.switch.ch!news.bme.hu!news.sztaki.hu!news.iif.hu!01-newsfeed.univie.ac.at!03-newsfeed.univie.ac.at!sbg.ac.at!not-for-mail From: Walter Koppensteiner Newsgroups: bionet.biophysics Subject: Potential of Mean Force references Date: Thu, 12 Jun 1997 09:09:32 +0200 Organization: Center for Applied Molecular Engineering Lines: 22 Message-ID: <339FA0AC.167E@came.sbg.ac.at> NNTP-Posting-Host: agnes.came.sbg.ac.at Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01SGoldC-SGI (X11; I; IRIX 6.3 IP32) Hi, I'm looking for references (books, reviews, etc.) of Potential of Mean Force and related things like superposition approximation, pair distribution functions, integral equations, etc. My main interests are applications of these theories to (bio)polymers in solution. Walter -- =============================================================== Walter Koppensteiner University of Salzburg Center of Applied Molecular Engineering Jakob Haringer Strasse 3 Phone: +43-662-8044-5794 A-5020 Salzburg, Austria Email: walter@came.sbg.ac.at =============================================================== From owner-biophysics@net.bio.net Wed Jun 11 23:00:00 1997 Path: biosci!JAGUAR.DOTE.HU!bacso From: bacso@JAGUAR.DOTE.HU (Zsolt Bacso MD) Newsgroups: bionet.biophysics Subject: unsubscribe biophys Date: 11 Jun 1997 23:40:38 -0700 Organization: Biophys. Dep., Medical Univ. of Debrecen, Hungary Lines: 1 Sender: daemon@net.bio.net Distribution: world Message-ID: <33A00EAC.2F1B@jaguar.dote.hu> Reply-To: bacso@jaguar.dote.hu NNTP-Posting-Host: net.bio.net unsubscribe biophys From owner-biophysics@net.bio.net Wed Jun 11 23:00:00 1997 Path: biosci!HAVERFORD.EDU!jdepaula From: jdepaula@HAVERFORD.EDU (Julio de Paula) Newsgroups: bionet.biophysics Subject: help Date: 12 Jun 1997 07:09:29 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 27 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net The recent flood of inappropriate postings has prompted me to unsubscribe. I realize that I could volunteer to moderate the group and hence do a service to all who are interested in discussing biophysics and not nude cheerleaders. However, my plate is full. I need help with the unsubscription process, though. I tried following the procedures outlined in the FAQ for this group but get back a message to the effect that I am not a member of the group! And then I continue to receive messages! Has anyone else run into this problem? How did you get around it? Thanks, Julio. Julio C. de Paula Associate Professor of Chemistry Haverford College Haverford, PA 19041 phone: 610-896-1217 fax: 610-896-4904 email: jdepaula@haverford.edu From owner-biophysics@net.bio.net Wed Jun 11 23:00:00 1997 Path: biosci!VMSB.CSD.MU.EDU!6888collinsj From: 6888collinsj@VMSB.CSD.MU.EDU (Joe Collins) Newsgroups: bionet.biophysics Subject: unsubscribe biophysics Date: 12 Jun 1997 05:42:53 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 2 Sender: daemon@net.bio.net Distribution: world Message-ID: <01BC7704.7ED82400@joe.sci.mu.edu> NNTP-Posting-Host: net.bio.net unsubscribe biophysics From owner-biophysics@net.bio.net Wed Jun 11 23:00:00 1997 Path: biosci!bloom-beacon.mit.edu!spool.mu.edu!uwm.edu!news-peer.gsl.net!news.maxwell.syr.edu!news-was.dfn.de!news-kar1.dfn.de!news-stu1.dfn.de!news-mue1.dfn.de!news-nue1.dfn.de!news-lei1.dfn.de!news.uni-leipzig.de!news From: Gabi Lantzsch Newsgroups: bionet.biophysics Subject: Isotopic effects of deuterium Date: Thu, 12 Jun 1997 10:50:20 +0200 Organization: University of Leipzig Lines: 5 Message-ID: <339FB84C.709C@rz.uni-leipzig.de> NNTP-Posting-Host: fun.exphysik.uni-leipzig.de Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01Gold (Win95; I) Hi, can anybody give me some references or other informations about the differences of dissoziation equilibrium in H2O and D2O? Cheers Gabriela From owner-biophysics@net.bio.net Wed Jun 11 23:00:00 1997 Path: biosci!VMSB.CSD.MU.EDU!6888collinsj From: 6888collinsj@VMSB.CSD.MU.EDU (Joe Collins) Newsgroups: bionet.biophysics Subject: help Date: 12 Jun 1997 12:49:55 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 3 Sender: daemon@net.bio.net Distribution: world Message-ID: <01BC7740.29831500@joe.sci.mu.edu> NNTP-Posting-Host: net.bio.net From owner-biophysics@net.bio.net Thu Jun 12 23:00:00 1997 Path: biosci!MSU.EDU!RNREUSCH From: RNREUSCH@MSU.EDU ("Rosetta N. Reusch") Newsgroups: bionet.biophysics Subject: Novel Components of Ion Channels Date: 13 Jun 1997 05:57:34 -0700 Organization: MSU Lines: 20 Sender: daemon@net.bio.net Distribution: world Message-ID: <33A143C5.EB548EB@msu.edu> Reply-To: RNREUSCH@msu, edu@server.mph.msu.edu NNTP-Posting-Host: net.bio.net Bacterial calcium channels are composed of poly-3-hydroxybutyrate/polyphosphate complexes (Biophys J. 69,754 (1995); PNAS, in press). The channels resemble protein calcium channels in many ways. They are voltage-activated, selective for divalent over monovalent cations, permeant to Ca, Sr, Ba, and blocked by La. They have complex gating kinetics. These are the progenitors of eukaryotic protein channels. I am curious as to whether the complexes have been conserved. Eukaryotic cells synthesize both of these polymers. Did eukayrotes really abandon polyhydroxybutyrate and polyphosphate and reinvent ion channels using only protein, or are these elusive polymers hidden within the proteins? If you want to know whether your ion channel contains these polymers and can spare a few ug, email me. We routinely test for them. Rosetta Reusch rnreusch@msu.edu From owner-biophysics@net.bio.net Thu Jun 12 23:00:00 1997 Path: biosci!EXMDI1.MPIEM.GWDG.DE!hesse From: hesse@EXMDI1.MPIEM.GWDG.DE ("D. Hesse") Newsgroups: bionet.biophysics Subject: compressibility-factors ? Date: 13 Jun 1997 01:32:23 -0700 Organization: MPI f|r experimentelle Medizin Lines: 15 Sender: daemon@net.bio.net Distribution: world Message-ID: <33A105D3.7268@exmdi1.mpiem.gwdg.de> NNTP-Posting-Host: net.bio.net I'm looking for a table where the compressibility-factors of some common used HPLC-Solvents ( acetonitrile,water,methanol +...... ) are listed. Has anyone seen such a table anywhere in the web or in a catalogue ? Are there any experiences with the use of these values in micro-HPLC ? Thanks for help -- Doerte Hesse Max-Planck-Institut f|r experimentelle Medizin Abt. Immunchemie Hermann-Rein-Strasse 3 37075 Goettingen Tel.: 0551 / 3899-304 Fax : 0551 / 3899-323 E-mail : Hesse@exmdi1.mpiem.gwdg.de From owner-biophysics@net.bio.net Thu Jun 12 23:00:00 1997 Path: biosci!agate!hammer.uoregon.edu!su-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news-peer.sprintlink.net!news-pull.sprintlink.net!news-in-east.sprintlink.net!news.sprintlink.net!Sprint!149.84.65.23!news.alfred.edu!clicnet!news.clic.net!rcogate.rco.qc.ca!altitude!usenet From: Achim Recktenwald Newsgroups: bionet.biophysics Subject: Re: Polyhdroxybutyrate modified proteins Date: Thu, 12 Jun 1997 13:19:07 -0400 Organization: Communications Accessibles Montreal, Quebec Canada Lines: 35 Message-ID: <33A02F8B.7C42@ibex.ca> References: <339DC42B.189B9CEB@msu.edu> Reply-To: reckteac@ibex.ca NNTP-Posting-Host: ibex.hip.cam.org Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01 (Win95; I) To: RNREUSCH@msu, edu@server.mph.msu.edu Rosetta N. Reusch wrote: > > We find that a number of proteins are modified by short-chain > poly(3-hdroxybutyrate) (cPHB). cPHB is invisible to UV and X-ray > crystallography and is degraded during Edman sequencing so it has > remained undiscovered. We have antibody to synthetic PHB that can be > used to identify cPHB modified proteins on Western blots. We also have > a great interest in identifying cPHB-conjugated proteins. If you want > to know if your protein is modified by cPHB and can spare a few ug, > please email me. > > Rosetta Reusch > Associate Professor > Dept. Microbiology > Michigan State University > RNREUSCH@msu.edu This is a very interesting finding. From which sources where these proteins you tested; bacterial, mammalian, fungal,...? Achim __________________________ Achim Recktenwald, PhD IBEX Technologies, Inc. 5485 rue Pare Montreal, Quebec, H4P 1P7 Canada Fax : (514) 344-8827 email: achim@ibex.ca The usual disclaimers apply. From owner-biophysics@net.bio.net Thu Jun 12 23:00:00 1997 Path: biosci!TTUHSC.EDU!phyan From: phyan@TTUHSC.EDU (Alan Neely) Newsgroups: bionet.biophysics Subject: Re: Novel Components of Ion Channels Date: 13 Jun 1997 06:53:27 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 36 Sender: daemon@net.bio.net Distribution: world Message-ID: <3.0.1.32.19970613085858.006a23c8@ttuhsc.edu> References: <33A143C5.EB548EB@msu.edu> NNTP-Posting-Host: net.bio.net At 05:57 AM 6/13/97 -0700, you wrote: >Bacterial calcium channels are composed of >poly-3-hydroxybutyrate/polyphosphate >complexes (Biophys J. 69,754 (1995); PNAS, in press). The channels >resemble protein calcium channels in many ways. They are >voltage-activated, >selective for divalent over monovalent cations, permeant to Ca, Sr, Ba, >and blocked by La. They have complex gating kinetics. These >are the progenitors of eukaryotic protein channels. I am curious >as to whether the complexes have been conserved. Eukaryotic cells >synthesize both of these polymers. Did eukayrotes really abandon >polyhydroxybutyrate and polyphosphate and reinvent ion channels using >only >protein, or are these elusive polymers hidden within the proteins? >If you want to know whether your ion channel contains these polymers and > >can spare a few ug, email me. We routinely test for them. > >Rosetta Reusch >rnreusch@msu.edu > I work on calcium channels my self but I use the regular DNA encoded-protein made voltage activated voltage channel. I'm an electrophysiology but some of my research is directed at detecting the portein in the different membrane. So if I get really good at near christmas a may have some stuff. I'll check the biophysic j's paper. Alan Neely Dep. of Physiology Texas Tech U. H.S.C. email:phyan@ttuhsc.edu From owner-biophysics@net.bio.net Thu Jun 12 23:00:00 1997 Path: biosci!agate!howland.erols.net!news.maxwell.syr.edu!news.cis.ohio-state.edu!nntp.sei.cmu.edu!bb3.andrew.cmu.edu!andrew.cmu.edu!mm6n+ From: Marcela Madrid Newsgroups: bionet.biophysics Subject: PSC Sequence Analysis Workshop Date: Fri, 13 Jun 1997 15:13:23 -0400 Organization: Pittsburgh Supercomputing Center, Carnegie Mellon, Pittsburgh, PA Lines: 121 Message-ID: NNTP-Posting-Host: po8.andrew.cmu.edu The Pittsburgh Supercomputing Center is offering a NUCLEIC ACID AND PROTEIN SEQUENCE ANALYSIS workshop, July 20-25, 1997. This intense workshop will teach the basics of sequence analysis, including remote supercomputing, database searching and pairwise sequence alignment, multiple sequence alignments, pattern identification, inverse structure prediction, and visualization of macromolecular structures. Special emphasis will be placed on parameter selection, and the mathematical and statistical properties of the algorithms and methods presented. Information will also be presented on the latest pattern identification techniques including hidden markov models, advanced position-specific weight matrix techniques and bayesan estimation. The workshop will consist of both lectures and extensive hands-on lab sessions. In addition to the lab exercises, participants can work on their own research problems, with the help of the instructors. Participants are encouraged to bring their research data, but not required. Instructors Dr. Gary Churchill, Cornell University Dr. David W. Deerfield II, Pittsburgh Supercomputing Center Dr. Michael Gribskov, San Diego Supercomputer Center Dr. Hugh B. Nicholas Jr., Pittsburgh Supercomputing Center Alexander J. Ropelewski, Pittsburgh Supercomputing Center For more information, please see http://www.psc.edu/biomed/workshops/wk-97/NAPSA-97/napsa.html or contact Nancy Blankenstein, biomed@psc.edu, (412) 268-4960. To register, please send the following registration form to biomed@psc.edu Registration deadline is July 20, 1997. _____________________________________________________________________________ Pittsburgh Supercomputing Center Biomedical Supercomputing Initiative APPLICATION FORM Please complete the following form and return it with the corresponding documentation. Direct inquiries to: Nancy Blankenstein biomed@psc.edu or (412) 268-4960. Application Deadline: July 20, 1997 PITTSBURGH SUPERCOMPUTING CENTER BIOMEDICAL INITIATIVE NUCLEIC ACID AND PROTEIN SEQUENCE ANALYSIS WORKSHOP, July 20-25, 1997. APPLICATION Name: ______________________________________________________________ Affiliation: ______________________________________________________________ Address: ______________________________________________________________ (Business) ______________________________________________________________ ______________________________________________________________ (Home) ______________________________________________________________ Telephone: ____________________________ ____________________________ (Business) (Home) *Social Security Number: _______-_____-_______ Citizenship:___________________ Electronic Mail Address:_____________________________________________________ Status: ___Graduate ___Post-doctoral Fellow ___Faculty ___Other (specify) Please indicate specifically any special housing, transportation or dietary arrangements you will need: ___________________________________________________ How did you learn about this workshop:_______________________________________ REQUIREMENTS: Applicants must submit a completed application form and a cover letter. The letter should describe, in one or two paragraphs, your current research, and how participating in the workshop will enhance this research. Please include a brief statement describing your level of experience with computers. Faculty members, staff and post-docs should provide a curriculum vitae. Graduate students must have a letter of recommendation from a faculty member. Please return all application materials six weeks before the workshop you are applying for to Biomedical Workshop Applications Committee Pittsburgh Supercomputing Center 4400 Fifth Avenue, Suite 230C Pittsburgh, PA 15213 Direct inquiries to: Nancy Blankenstein biomed@psc.edu, or (412)268-4960. *Disclosure of Social Security Number is voluntary. PSC does not discriminate on the basis of race, color, religion, sex, age, creed, national or ethnic origin, or handicap. From owner-biophysics@net.bio.net Thu Jun 12 23:00:00 1997 Path: biosci!VMSB.CSD.MU.EDU!6888collinsj From: 6888collinsj@VMSB.CSD.MU.EDU (Joe Collins) Newsgroups: bionet.biophysics Subject: unsubscribe biophysics <6888collinsj@VMSB.CSD.MU.EDU> Date: 13 Jun 1997 08:46:04 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 1 Sender: daemon@net.bio.net Distribution: world Message-ID: <01BC77E7.555F7040@joe.sci.mu.edu> NNTP-Posting-Host: net.bio.net From owner-biophysics@net.bio.net Thu Jun 12 23:00:00 1997 Path: biosci!Fie.com!singram From: singram@Fie.com ("Stephen F. Ingram") Newsgroups: bionet.biophysics Subject: RE: Novel Components of Ion Channels Date: 13 Jun 1997 08:31:05 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 55 Sender: daemon@net.bio.net Distribution: world Message-ID: <4B60CA64EE79D011A9EA0000C0BF90E91811F5@puma.fie.com> NNTP-Posting-Host: net.bio.net Unsubscribe biophys ---------- From: phyan@ttuhsc.edu[SMTP:phyan@ttuhsc.edu] Sent: Friday, June 13, 1997 9:53 AM To: biophys@net.bio.net Subject: Re: Novel Components of Ion Channels At 05:57 AM 6/13/97 -0700, you wrote: >Bacterial calcium channels are composed of >poly-3-hydroxybutyrate/polyphosphate >complexes (Biophys J. 69,754 (1995); PNAS, in press). The channels >resemble protein calcium channels in many ways. They are >voltage-activated, >selective for divalent over monovalent cations, permeant to Ca, Sr, Ba, >and blocked by La. They have complex gating kinetics. These >are the progenitors of eukaryotic protein channels. I am curious >as to whether the complexes have been conserved. Eukaryotic cells >synthesize both of these polymers. Did eukayrotes really abandon >polyhydroxybutyrate and polyphosphate and reinvent ion channels using >only >protein, or are these elusive polymers hidden within the proteins? >If you want to know whether your ion channel contains these polymers and > >can spare a few ug, email me. We routinely test for them. > >Rosetta Reusch >rnreusch@msu.edu > I work on calcium channels my self but I use the regular DNA encoded-protein made voltage activated voltage channel. I'm an electrophysiology but some of my research is directed at detecting the portein in the different membrane. So if I get really good at near christmas a may have some stuff. I'll check the biophysic j's paper. Alan Neely Dep. of Physiology Texas Tech U. H.S.C. email:phyan@ttuhsc.edu From owner-biophysics@net.bio.net Fri Jun 13 23:00:00 1997 Path: biosci!agate!hammer.uoregon.edu!newsfeed.internetmci.com!news2.fibr.net!news1.fibr.net!news.fibr.net!news From: Newsgroups: bionet.biophysics Subject: http://www.planetfun.com/videosex.htm Date: 14 Jun 1997 05:47:54 GMT Lines: 3 Message-ID: <5ntbaa$eb3@nimitz.fibr.net> NNTP-Posting-Host: port1-6.lconn.com http://www.planetfun.com/videosex.htm Adults Only From owner-biophysics@net.bio.net Sat Jun 14 23:00:00 1997 Path: biosci!agate!spool.mu.edu!uwm.edu!news-peer.gsl.net!howland.erols.net!news.apfel.de!univ-lyon1.fr!pasteur.fr!jussieu.fr!rain.fr!wanadoo.fr!not-for-mail From: Patrice Bouchardon Newsgroups: bionet.biophysics Subject: tree relationship Date: Sun, 15 Jun 1997 13:02:20 +0000 Organization: Wanadoo - (Client of French Internet Provider) Lines: 30 Message-ID: <33A3E7DC.545F@smtp.wanadoo.fr> Reply-To: patrice.bouchardon@wanadoo.fr NNTP-Posting-Host: bdx1-210.abo.wanadoo.fr Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 2.02 [fr] (Macintosh; I; PPC) Hi all, This is a message for all tree lovers I am currently writing a book about The relationship we can have with Trees, and I need your contribution. I would be interested in receiving from you : - the story of a personal experience you have had with trees. - any datas about knowledge and tradition of native people about trees (legends, traditional ways of healing with trees,...), or folk traditions - any experience which foicuses on helping people to have a creative contact with trees. If you know an organization anywhere in the world which promotes such an approach, please let me know. - any information about the energy fields of trees. Please E-mail this message to all people who are interested in trees. All sources of information will be acknowledged in the book if you wish. All contributions greatfully received. Patrice Patrice.Bouchardon@wanadoo.fr From owner-biophysics@net.bio.net Sat Jun 14 23:00:00 1997 Path: biosci!agate!spool.mu.edu!uwm.edu!vixen.cso.uiuc.edu!howland.erols.net!newsfeed.internetmci.com!masternews.telia.net!newssrv.ita.tip.net!i2unix!usenet@iunet.it From: Italo Cantore Newsgroups: bionet.biophysics Subject: Frye and Edidin Date: Mon, 16 Jun 1997 01:01:30 +0200 Lines: 13 Message-ID: <33A47448.10E32813@memex.it> NNTP-Posting-Host: 193.70.84.34 Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 X-Mailer: Mozilla 4.0b5 [en] (Win95; I) X-Priority: 3 (Normal) I'm a medicine student, can anyone tell me more about Frye and Edidin (1970) experiment? Thanks -- Italo Cantore Via degli Oleandri,9 85100 Potenza ITALY Tel & fax: +39 971 55119 Talk: Italo@i.cantore.memex.it Email: i.cantore@memex.it Internet: http://www.memex.it/wu/italo From owner-biophysics@net.bio.net Sun Jun 15 23:00:00 1997 Path: biosci!SERVER1.RTC-ATHLONE.IE!dfaller From: dfaller@SERVER1.RTC-ATHLONE.IE ("Don Faller") Newsgroups: bionet.biophysics Subject: (none) Date: 16 Jun 1997 01:22:26 -0700 Organization: Athlone Regional College Lines: 10 Sender: daemon@net.bio.net Distribution: world Message-ID: <44E38BE6C54@server1.rtc-athlone.ie> NNTP-Posting-Host: net.bio.net unsubscribe biophys@net.bio.net ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ Dr. Don Faller, Tel: +353-902-24431 Dept. Applied Biology, Fax: +353-902-24492 Athlone Regional College, Dublin Road, Athlone, Co. Westmeath, IRELAND. From owner-biophysics@net.bio.net Sun Jun 15 23:00:00 1997 Path: biosci!BUPHYC.BU.EDU!BC From: BC@BUPHYC.BU.EDU Newsgroups: bionet.biophysics Subject: Viability of this enterprise Date: 16 Jun 1997 06:23:19 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 8 Sender: daemon@net.bio.net Distribution: world Message-ID: <01IK4VO5FPTE000B3P@buphyc.bu.edu> NNTP-Posting-Host: net.bio.net It has gotten to the point where junk mail of a particularly nasty nature is the main volume of messages. Not only has the level of garbage risen, the number of serious inquiries and discussions have fallen - bad messages, or so it seems, drive out good messages. And apparently drive out participants as well. Issues of whether or not this should be a completely "free" forum or not are moot. The thugs have taken over. What now? Bernard Chasan Professor of Physics, Boston U. From owner-biophysics@net.bio.net Sun Jun 15 23:00:00 1997 Path: biosci!SERVER1.RTC-ATHLONE.IE!dfaller From: dfaller@SERVER1.RTC-ATHLONE.IE ("Don Faller") Newsgroups: bionet.biophysics Subject: (none) Date: 16 Jun 1997 03:36:30 -0700 Organization: Athlone Regional College Lines: 10 Sender: daemon@net.bio.net Distribution: world Message-ID: <45075430280@server1.rtc-athlone.ie> NNTP-Posting-Host: net.bio.net unsubscribe biophys ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ Dr. Don Faller, Tel: +353-902-24431 Dept. Applied Biology, Fax: +353-902-24492 Athlone Regional College, Dublin Road, Athlone, Co. Westmeath, IRELAND. From owner-biophysics@net.bio.net Sun Jun 15 23:00:00 1997 Newsgroups: bionet.biophysics Path: biosci!agate!nntpfeed.doc.ic.ac.uk!sunsite.doc.ic.ac.uk!server3.netnews.ja.net!bradford.ac.uk!leeds.ac.uk!news From: EAR6VRP@leeds.ac.uk (V.R. Phoenix) Subject: Help! Photosynthesis absorbtion Message-ID: <5o3moq$86k_001@leeds.ac.uk> NNTP-Posting-Host: amon.leeds.ac.uk Organization: University of Leeds Date: Mon, 16 Jun 1997 16:39:54 +0100 (BST) X-Newsreader: News Xpress Version 1.0 Beta #4 Lines: 13 Is there a theoretical way of determining how much, and what wavelengths of light may be absorbed by a mineralised coating on a photosynthesising organism just from composition and structure of the coating? Basically I've got some photosynthesising microbes which have sequestered a mineral coating and I would like to estimate at what thickness and type this coating becomes detrimental to the organism. cheers for any help vern (e-mail ear6vrp@leeds.ac.uk or ear6vrp@lucs-02.novell.leeds.ac.uk) From owner-biophysics@net.bio.net Sun Jun 15 23:00:00 1997 Path: biosci!news.Stanford.EDU!su-news-hub1.bbnplanet.com!cam-news-hub1.bbnplanet.com!news.bbnplanet.com!news.maxwell.syr.edu!news-peer.sprintlink.net!news-pull.sprintlink.net!news-in-east.sprintlink.net!news.sprintlink.net!Sprint!205.232.174.12!node2.frontiernet.net!not-for-mail From: Sigel Bolverk VinDuran Newsgroups: bionet.biophysics,bionet.celegans,bionet.cellbiol Subject: The Realm Date: Mon, 16 Jun 1997 11:13:12 -0400 Organization: The Realm of Magick - http://www.geocities.com/Athens/Acropolis/5113/ Lines: 5 Message-ID: <5o3lbh$igg$1@node2.frontiernet.net> NNTP-Posting-Host: usr16-22.dial.roc.frontiernet.net Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01Gold (Win95; I) Xref: biosci bionet.biophysics:3140 bionet.celegans:1461 bionet.cellbiol:7521 Come and visit this great new web site http://www.geocities.com/Athens/Acropoplis/5113/ From owner-biophysics@net.bio.net Sun Jun 15 23:00:00 1997 Path: biosci!SERVER1.RTC-ATHLONE.IE!dfaller From: dfaller@SERVER1.RTC-ATHLONE.IE ("Don Faller") Newsgroups: bionet.biophysics Subject: (none) Date: 16 Jun 1997 08:16:35 -0700 Organization: Athlone Regional College Lines: 1 Sender: daemon@net.bio.net Distribution: world Message-ID: <455203F365F@server1.rtc-athlone.ie> NNTP-Posting-Host: net.bio.net unsubscribe biophys From owner-biophysics@net.bio.net Sun Jun 15 23:00:00 1997 Path: biosci!CCIT.ARIZONA.EDU!AYool From: AYool@CCIT.ARIZONA.EDU (Andrea Yool) Newsgroups: bionet.biophysics Subject: unsubscribe biophys Date: 16 Jun 1997 10:17:40 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 13 Sender: daemon@net.bio.net Distribution: world Message-ID: <01IK4XR1TZAQ934TK3@CCIT.ARIZONA.EDU> NNTP-Posting-Host: net.bio.net unsubscribe biophys ============================================================================ :::::/\::::::/\::::::/\::::::/\::::::/\::::::/\::::: /\::::::/\::::::/\::::: ____//\\____//\\____//\\____//\\____//\\____//\\____//\\____//\\____//\\____ ::::\\//::::/ \::::\\//::::/ \::::\\//::: / \::::\\//::::/ \::::\\//:::: _____\/____/ \____\/____/ \____\/____/ \____\/____/ \____\/_____ ANDREA YOOL::::DEPTS OF PHYSIOLOGY AND PHARMACOLOGY::::UNIVERSITY OF ARIZONA ============================================================================ From owner-biophysics@net.bio.net Sun Jun 15 23:00:00 1997 Path: biosci!agate!howland.erols.net!news.maxwell.syr.edu!news.cis.ohio-state.edu!nntp.sei.cmu.edu!bb3.andrew.cmu.edu!andrew.cmu.edu!mm6n+ From: Marcela Madrid Newsgroups: bionet.biophysics Subject: PSC Sequence Analysis Workshop - CORRECTED REGISTRATION DATE Date: Mon, 16 Jun 1997 15:21:49 -0400 Organization: Pittsburgh Supercomputing Center, Carnegie Mellon, Pittsburgh, PA Lines: 124 Message-ID: NNTP-Posting-Host: po8.andrew.cmu.edu The Pittsburgh Supercomputing Center is offering a NUCLEIC ACID AND PROTEIN SEQUENCE ANALYSIS workshop, July 20-25, 1997. This intense workshop will teach the basics of sequence analysis, including remote supercomputing, database searching and pairwise sequence alignment, multiple sequence alignments, pattern identification, inverse structure prediction, and visualization of macromolecular structures. Special emphasis will be placed on parameter selection, and the mathematical and statistical properties of the algorithms and methods presented. Information will also be presented on the latest pattern identification techniques including hidden markov models, advanced position-specific weight matrix techniques and bayesan estimation. The workshop will consist of both lectures and extensive hands-on lab sessions. In addition to the lab exercises, participants can work on their own research problems, with the help of the instructors. Participants are encouraged to bring their research data, but not required. Instructors Dr. Gary Churchill, Cornell University Dr. David W. Deerfield II, Pittsburgh Supercomputing Center Dr. Michael Gribskov, San Diego Supercomputer Center Dr. Hugh B. Nicholas Jr., Pittsburgh Supercomputing Center Alexander J. Ropelewski, Pittsburgh Supercomputing Center For more information, please see http://www.psc.edu/biomed/workshops/wk-97/NAPSA-97/napsa.html or contact Nancy Blankenstein, biomed@psc.edu, (412) 268-4960. To register, please send the following registration form to biomed@psc.edu Registration deadline is June 20, 1997. _____________________________________________________________________ Pittsburgh Supercomputing Center Biomedical Supercomputing Initiative APPLICATION FORM Please complete the following form and return it with the corresponding documentation. Direct inquiries to: Nancy Blankenstein biomed@psc.edu or (412) 268-4960. Application Deadline: June 20, 1997 PITTSBURGH SUPERCOMPUTING CENTER BIOMEDICAL INITIATIVE NUCLEIC ACID AND PROTEIN SEQUENCE ANALYSIS WORKSHOP, July 20-25, 1997. APPLICATION Name: _______________________________________________________ Affiliation: _______________________________________________________ Address: _______________________________________________________ (Business) _______________________________________________________ _______________________________________________________ (Home) _______________________________________________________ Telephone: _________________________ ________________________ (Business) (Home) *Social Security Number: _______-_____-_______ Citizenship:___________________ Electronic Mail Address:______________________________________________ Status: ___Graduate ___Post-doctoral Fellow ___Faculty ___Other (specify) Please indicate specifically any special housing, transportation or dietary arrangements you will need: ___________________________________________________ How did you learn about this workshop:_______________________________ REQUIREMENTS: Applicants must submit a completed application form and a cover letter. The letter should describe, in one or two paragraphs, your current research, and how participating in the workshop will enhance this research. Please include a brief statement describing your level of experience with computers. Faculty members, staff and post-docs should provide a curriculum vitae. Graduate students must have a letter of recommendation from a faculty member. Please return all application materials by June 20, 1997 to Biomedical Workshop Applications Committee Pittsburgh Supercomputing Center 4400 Fifth Avenue, Suite 230C Pittsburgh, PA 15213 Direct inquiries to: Nancy Blankenstein biomed@psc.edu, or (412)268-4960. *Disclosure of Social Security Number is voluntary. PSC does not discriminate on the basis of race, color, religion, sex, age, creed, national or ethnic origin, or handicap. From owner-biophysics@net.bio.net Sun Jun 15 23:00:00 1997 Path: biosci!BIOKIN.COM!pkuzmic From: pkuzmic@BIOKIN.COM ("Petr Kuzmic") Newsgroups: bionet.biophysics Subject: Michaelis-Menten (1913) Date: 16 Jun 1997 16:16:44 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 8 Sender: daemon@net.bio.net Distribution: world Message-ID: <199706162317.SAA20334@tower.itis.com> NNTP-Posting-Host: net.bio.net Does anyone know if the classic paper Michaelis & Menten (1913) Z. Biochem. 49, 333-69 (1913) was ever translated into English? Thanks, Petr Kuzmic pkuzmic@biokin.com From owner-biophysics@net.bio.net Mon Jun 16 23:00:00 1997 Path: biosci!biosci!not-for-mail From: Roberto Sanchez Newsgroups: bionet.molec-model,bionet.software,bionet.structural-nmr,bionet.xtallography,bionet.software.source,bionet.molbio.proteins,bionet.biophysics Subject: ** ANNOUNCING NEW VERSION OF MODELLER-4 Date: 16 Jun 1997 18:20:22 -0700 Organization: The Rockefeller University Lines: 121 Sender: daemon@net.bio.net Distribution: world Message-ID: <33A5E464.4487@rockvax.rockefeller.edu> NNTP-Posting-Host: net.bio.net Xref: biosci bionet.molec-model:1607 bionet.software:18844 bionet.structural-nmr:2041 bionet.xtallography:3544 bionet.molbio.proteins:10983 bionet.biophysics:3145 ANNOUNCEMENT A NEW VERSION OF MODELLER-4, A PROGRAM FOR COMPARATIVE PROTEIN STRUCTURE MODELING, IS RELEASED. Please see the README file below for how to get the program. New features include faster execution, a better manual, more robust modeling of protein structure. A Linux version is also available. Current users can use the same keyword as for version 3 (you can find it in your .cshrc file). There is no need to resend the licensing agreement. Best Wishes, Andrej Sali ------------------------------------------------------------------------------- A review of CASP2 that qualifies MODELLER: R.L. Dunbrack~Jr., D.L. Gerloff, M. Bower, X. Chen, O. Lichtarge & F.E. Cohen. Meeting review: the second meeting on the critical assessment of techniques for protein structure prediction (CASP2), Asilomar California, December 13-16, 1996. Folding & Design 2, R27-R42, 1997. ------------------------------------------------------------------------------- MODELLER PROTEIN STRUCTURE MODELLING BY SATISFACTION OF SPATIAL RESTRAINTS MODELLER 4, June 15, 1997 Copyright(c) 1989-1997 Andrej Sali All Rights Reserved Written by Andrej Sali, Roberto Sanchez, and Azat Badretdinov Rockefeller University, New York, USA Harvard University, Cambridge, USA Imperial Cancer Research Fund, London, UK Birkbeck College, University of London, London, UK Andrej Sali, The Rockefeller University, 1230 York Avenue, New York, NY 10021, USA. Tel: +1-212-327-7550. Fax: +1-212-327-7540 (or 7974). E-mail: sali@rockvax.rockefeller.edu. URL: http://guitar.rockefeller.edu/. ** DESCRIPTION: MODELLER is most frequently used for homology or comparative modeling of protein three-dimensional structure: the user provides an alignment of a sequence to be modeled with known related structures and MODELLER will automatically calculate a full-atom model. More generally, MODELLER models protein 3D structure by satisfaction of spatial restraints (A. Sali & T.L. Blundell. J.Mol.Biol. 234, 779-815, 1993). In principle, the restraints can be derived from a number of different sources. These include homologous structures (comparative modeling), NMR experiments (NMR refinement), rules of secondary structure packing (combinatorial modeling), cross-linking experiments, fluorescence spectroscopy, image reconstruction in electron microscopy, site-directed mutagenesis, intuition, residue-residue and atom-atom potentials of mean force, etc. The output of MODELLER is a 3D structure of a protein that satisfies these restraints as well as possible. The optimization is carried out by the variable target function procedure employing methods of conjugate gradients and molecular dynamics with simulated annealing. MODELLER can also do several other tasks, including multiple comparison of protein sequences and/or structures, clustering, and searching of sequence databases. The program is described in a 150-page manual. MODELLER is written in Fortran and is meant to run on a UNIX system. ** DISTRIBUTION: MODELLER is available free of charge to academic non-profit institutions. First, please use the anonymous ftp account on guitar.rockefeller.edu (IP 129.85.13.198) to copy at least the following files from the pub/modeller directory to your computer: the license form (PostScript file academic-license.ps), the distribution file that contains the data files necessary to run MODELLER (modeller4-data.tar.Z), and an executable for each machine type that you want to use (described in file INSTALLATION). Next, please sign, and mail or fax the license form to Andrej Sali. You will then receive the key (MODELLER_KEY) that has to be assigned to the environment variable KEY_MODELLER4 in your login script (.cshrc). See file INSTALLATION for installation instructions. There is also a MODELLER home page on World Wide Web at URL http://guitar.rockefeller.edu that can be used to ftp the program and view the manual. A graphical interface to MODELLER is available as part of QUANTA, InsightII, and WEBLab, interactive molecular modeling programs with many tools for protein modeling and structural analysis. QUANTA, InsightII, and WEBLab facilitate preparation of input files for MODELLER (eg, alignment file) as well as an analysis of results (eg, an evaluation of the models). If you are interested in these programs, please contact Ms. Brenda Pfeiffer, Molecular Simulations Inc., 9685 Scranton Road, San Diego, CA 92121-3752, tel: +1-619-546-5319, fax: +1-619-458-0136, email: blp@msi.com. ** CONTENTS: src\ sources or executables for MODELLER; modlib\ libraries and data files for the programs; scripts\ script files used to compile and use MODELLER; doc\ MODELLER documentation; Makefile Makefile for compiling/installing MODELLER modules; modeller4.README this file; INSTALLATION how to install MODELLER; Install compilation and installation script relying on Makefile; examples\ examples; ------------------------------------------------------------------------------- Posted to: bionet.molec-model bionet.software bionet.structural-nmr bionet.xtallography bionet.software.source bionet.molbio.proteins bionet.biophysics bionet.announce ------------------------------------------------------------------------------- From owner-biophysics@net.bio.net Mon Jun 16 23:00:00 1997 Path: biosci!internet!biosci!not-for-mail From: biohelp (BIOSCI Administrator) Newsgroups: bionet.biophysics Subject: BIOSCI/bionet miniFAQ & Fundraiser Date: 17 Jun 1997 02:00:06 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 233 Sender: daemon@net.bio.net Distribution: world Message-ID: <199706170900.CAA24289@net.bio.net> NNTP-Posting-Host: net.bio.net (LAST REVISION: 30-JUL-95) This BIOSCI "miniFAQ" is designed to answer the questions that come up the *most frequently*. The main BIOSCI FAQ (Frequently Asked Questions) is accessible on the World Wide Web at URL http://www.bio.net/. If you can not find an answer to your question in this or other documentation, the BIOSCI technical support staff answers e-mail queries sent to biosci-help@net.bio.net We can only answer questions about the use of the newsgroups and mailing lists. We unfortunately do not have the staff to do Internet information searches or answer scientific questions. Please post those to the appropriate BIOSCI/bionet newsgroups. Contents: -------- 0) BIOSCI NEEDS YOUR SUPPORT!! 1) Using the WWW to access the BIOSCI/bionet newsgroups. 2) What to do about "spams," i.e., junk mail, ads, etc. 3) Examples of subscribing and unsubscribing to the mailing lists. 4) The BIOSCI user address and research interest directory. 0) BIOSCI NEEDS YOUR SUPPORT!! ------------------------------ BIOSCI's government funding has been expended, and we are now operating solely from advertising revenue that we have raised from our Web site at http://www.bio.net/. We need just a few minutes of your time to help us serve you. You can do two important things which will take very little time for you individually and will immensely help us continue to help you. First, please use our WWW system at http://www.bio.net/ to access the archives. You can post or reply to messages via your Web browser as described in item #1 below. Your usage helps attract sponsors. If you contact any of our sponsors, please be sure to thank them for supporting BIOSCI. It is critical for them to get this feedback if they are to continue their sponsorship for the long term. Second, if you work for a company or organization that provides products or services of interest to the biology community, please pass this message on to your marketing or marketing communications department or other appropriate group. Please ask them to help support BIOSCI by sponsoring our Web site and explain the uses and benefits of the system to the biology community. If they are interested, they can then contact us for further information at our tech support address, biosci-help@net.bio.net. 1) Using the WWW to access the BIOSCI/bionet newsgroups. -------------------------------------------------------- As of 10 December 1995, all BIOSCI/bionet full newsgroups are accessible through the World Wide Web (WWW) at URL http://www.bio.net. One can read and reply publicly or privately to both recent postings and archived messages through one's Web browser if it is configured properly to send e-mail. Each newsgroup is equipped with its own WAIS index. The main BIOSCI home page also has access to the BIO-JOURNALS Table of Contents database WAIS index and the BIOSCI user address database described in another item further below. 2) What to do about "spams," i.e., junk mail, ads, etc. ------------------------------------------------------- BIOSCI is a set of parallel USENET newsgroups (the "bionet" groups), mailing lists, and a hypermail archive at URL http://www.bio.net/. The same postings are distributed on all media (except for a small number of mailing-list-only groups at net.bio.net). Unfortunately it is becoming a despicable practice on the Internet (by a few people out to make a fast buck) to do automated mass postings to thousands of newsgroups and mailing lists. These attempts to grab free advertising are refered to as "spams" in the usual, somewhat boneheaded, net terminology. USENET is more susceptible to this practice, and many spams originate on the USENET groups and then are passed on to the mailing lists. However, spammers also get lists of mailing addresses and hit these too, so neither medium is immune. What should you do personally if you get junk mail? --------------------------------------------------- Just delete it and move on without reading it further. Filing a protest is becoming increasingly useless because spammers are often disguising the addresses where the messages are sent from. Unless you really understand Internet mail systems, your attempt at protest by sending replies to the message will often end up being sent to the address of an innocent person that the spammer is victimizing. What can BIOSCI/bionet do to protect its newsgroups? ---------------------------------------------------- The only solution currently available is to moderate the newsgroup. If this newsgroup is already moderated, then you are in good shape. Moderation protects the USENET distribution from about 95% of the spams that are being sent to date and protects the mailing lists completely. Moderation means, however, that someone has to take the time to review each message before it goes out. We have set up software here that simply allows the moderator to forward to an address at net.bio.net messages that (s)he wishes to have distributed. This takes no more time than that needed to read the message and pass it on, say about 1 min. per message. Most newsgroups currently have a discussion leader who is responsible for their newsgroup. The discussions leaders and their e-mail addresses are listed in the BIOSCI Information Sheet which is available on the Web at http://www.bio.net/. If a newsgroup is being hit with too many junk postings, please contact the discussion leader for that group and see if there is interest in moderating the group. Please do not assume that by simply posting a complaint to the newsgroup itself, anyone on the BIOSCI staff will act on your complaint. With close to 100 newsgroups to run, the BIOSCI staff has to rely on the discussion leaders of each newsgroup to report problems directly to us at biosci-help@net.bio.net. We will moderate any of our newsgroups if the discussion leader tells us that the readership of the group wishes to do so and if a moderator is willing to do the work. For most BIOSCI/bionet groups, this entails only a few minutes of work each day. Moderating a newsgroup will resolve probably 95% of the junk postings on the USENET distribution. Unfortunately there are easy ways for determined spammers to override the moderation mechanism on USENET, but we can protect our e-mail subscribers from unwanted postings if the newsgroup is moderated. You can also access our newsgroups over the WWW at URL http://www.bio.net. While this Web interface will not stop spammers from trying to post to the groups, this will give you yet another way, besides using USENET news, to keep the junk out of your personal mail files. For those of you with local USENET news systems, the Web interface will also give you faster access to new newsgroups and recent postings. 3) Examples of subscribing and unsubscribing to the mailing lists. ------------------------------------------------------------------ PLEASE NOTE: The BIOSCI management does NOT act on subscription/unsubscription requests that are posted improperly to the newsgroups and mailing lists. People who do this only bother everyone on the lists to no avail. Please be sure to follow the proper procedures below. Gory details are in the BIOSCI Information sheets on the Web at http://www.bio.net. Below we give an example utilizing the METHODS-AND-REAGENTS list at both of our two BIOSCI sites: Users in the Americas and Pacific Rim countries who use the BIOSCI ------------------------------------------------------------------ node at computer net.bio.net: ---------------------------- A) Determine the "listname" which is the <=8 character mail address ^^^^^^^^^^^^^ for the group. These can be found in the BIOSCI Info. Sheet. For the METHODS-AND-REAGENTS group the mailing address is methods@net.bio.net. The listname is the portion of the address to the left of the @ sign, i.e., "methods". The listname is used with the "subscribe" and "unsubscribe" commands illustrated below. B) Mail all commands in the body of a mail message addressed to biosci-server@net.bio.net. Do NOT send commands to the newsgroup posting addresses! Leave the Subject: line blank, any text on it will be ignored. C) In the body of your message put one or more of the following commands with an "end" command on the last line, e.g., subscribe methods unsubscribe methods end Do NOT put your e-mail address or other text on these lines. The server only allows you to cancel your subscription if the address on your mail header matches the address on our mailing list. Please ask for help at biosci-help@net.bio.net if your address has changed, e.g., if you know you are on the list but the server tells you that you are not a member. Users in Europe, Africa, and Central Asia who use the BIOSCI node at -------------------------------------------------------------------- computer daresbury.ac.uk (also known as dl.ac.uk): ------------------------------------------------- To subscribe and unsubscribe to/from the BIOSCI lists, you need to specify the full USENET newsgroup name with "bionet-news." prepended. The USENET newsgroup names are listed in the BIOSCI Information sheet on the Web at http://www.bio.net/. For the METHODS-AND-REAGENTS list the USENET newsgroup name is bionet.molbio.methds-reagnts, thus the appropriate commands are sub bionet-news.bionet.molbio.methds-reagnts unsub bionet-news.bionet.molbio.methds-reagnts These commands are included in a message addressed to mxt@dl.ac.uk, NOT to the newsgroup mailing addresses. As usual, include the text in the body of the message as text on the Subject: line is ignored. To unsubscribe from all the lists at the UK node, use unsub bionet-news Please note that if the address in the list is different than the one in your mail message header, you will not be able to unsubscribe by this method. If you have problems, please mail biosci@daresbury.ac.uk. 4) The BIOSCI user address and research interest directory. ----------------------------------------------------------- Please take this opportunity to add your name, address, and research interest information to the BIOSCI User Address Database if you have not already done so. You can fill out the address form directly through our Web page at URL http://www.bio.net/adrform.html. The address database is reindexed nightly for WWW access (the URL is http://www.bio.net/). If you are not directly on the Internet but can reach it by e-mail, please use our waismail server to access the user directory. waismail use is described above. You can also request a user address form by e-mail from biosci-help@net.bio.net. Please check your database entry from time-to-time to see if your address information is still up-to-date. Because of our limited personnel resources, we ask that you resubmit a *complete* form to revise your entry; we only replace complete entries and do not have resources to edit old forms. From owner-biophysics@net.bio.net Mon Jun 16 23:00:00 1997 Path: biosci!VIOL.ROCKEFELLER.EDU!roberto From: roberto@VIOL.ROCKEFELLER.EDU (Roberto Sanchez) Newsgroups: bionet.biophysics Subject: ** ANNOUNCING NEW VERSION OF MODELLER-4 Date: 17 Jun 1997 06:58:10 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 118 Sender: daemon@net.bio.net Distribution: world Message-ID: <199706171354.JAA09952@viol.rockefeller.edu> NNTP-Posting-Host: net.bio.net ANNOUNCEMENT A NEW VERSION OF MODELLER-4, A PROGRAM FOR COMPARATIVE PROTEIN STRUCTURE MODELING, IS RELEASED. Please see the README file below for how to get the program. New features include faster execution, a better manual, more robust modeling of protein structure. A Linux version is also available. Current users can use the same keyword as for version 3 (you can find it in your .cshrc file). There is no need to resend the licensing agreement. Best Wishes, Andrej Sali ------------------------------------------------------------------------------- A review of CASP2 that qualifies MODELLER: R.L. Dunbrack~Jr., D.L. Gerloff, M. Bower, X. Chen, O. Lichtarge & F.E. Cohen. Meeting review: the second meeting on the critical assessment of techniques for protein structure prediction (CASP2), Asilomar California, December 13-16, 1996. Folding & Design 2, R27-R42, 1997. ------------------------------------------------------------------------------- MODELLER PROTEIN STRUCTURE MODELLING BY SATISFACTION OF SPATIAL RESTRAINTS MODELLER 4, June 15, 1997 Copyright(c) 1989-1997 Andrej Sali All Rights Reserved Written by Andrej Sali, Roberto Sanchez, and Azat Badretdinov Rockefeller University, New York, USA Harvard University, Cambridge, USA Imperial Cancer Research Fund, London, UK Birkbeck College, University of London, London, UK Andrej Sali, The Rockefeller University, 1230 York Avenue, New York, NY 10021, USA. Tel: +1-212-327-7550. Fax: +1-212-327-7540 (or 7974). E-mail: sali@rockvax.rockefeller.edu. URL: http://guitar.rockefeller.edu/. ** DESCRIPTION: MODELLER is most frequently used for homology or comparative modeling of protein three-dimensional structure: the user provides an alignment of a sequence to be modeled with known related structures and MODELLER will automatically calculate a full-atom model. More generally, MODELLER models protein 3D structure by satisfaction of spatial restraints (A. Sali & T.L. Blundell. J.Mol.Biol. 234, 779-815, 1993). In principle, the restraints can be derived from a number of different sources. These include homologous structures (comparative modeling), NMR experiments (NMR refinement), rules of secondary structure packing (combinatorial modeling), cross-linking experiments, fluorescence spectroscopy, image reconstruction in electron microscopy, site-directed mutagenesis, intuition, residue-residue and atom-atom potentials of mean force, etc. The output of MODELLER is a 3D structure of a protein that satisfies these restraints as well as possible. The optimization is carried out by the variable target function procedure employing methods of conjugate gradients and molecular dynamics with simulated annealing. MODELLER can also do several other tasks, including multiple comparison of protein sequences and/or structures, clustering, and searching of sequence databases. The program is described in a 150-page manual. MODELLER is written in Fortran and is meant to run on a UNIX system. ** DISTRIBUTION: MODELLER is available free of charge to academic non-profit institutions. First, please use the anonymous ftp account on guitar.rockefeller.edu (IP 129.85.13.198) to copy at least the following files from the pub/modeller directory to your computer: the license form (PostScript file academic-license.ps), the distribution file that contains the data files necessary to run MODELLER (modeller4-data.tar.Z), and an executable for each machine type that you want to use (described in file INSTALLATION). Next, please sign, and mail or fax the license form to Andrej Sali. You will then receive the key (MODELLER_KEY) that has to be assigned to the environment variable KEY_MODELLER4 in your login script (.cshrc). See file INSTALLATION for installation instructions. There is also a MODELLER home page on World Wide Web at URL http://guitar.rockefeller.edu that can be used to ftp the program and view the manual. A graphical interface to MODELLER is available as part of QUANTA, InsightII, and WEBLab, interactive molecular modeling programs with many tools for protein modeling and structural analysis. QUANTA, InsightII, and WEBLab facilitate preparation of input files for MODELLER (eg, alignment file) as well as an analysis of results (eg, an evaluation of the models). If you are interested in these programs, please contact Ms. Brenda Pfeiffer, Molecular Simulations Inc., 9685 Scranton Road, San Diego, CA 92121-3752, tel: +1-619-546-5319, fax: +1-619-458-0136, email: blp@msi.com. ** CONTENTS: src\ sources or executables for MODELLER; modlib\ libraries and data files for the programs; scripts\ script files used to compile and use MODELLER; doc\ MODELLER documentation; Makefile Makefile for compiling/installing MODELLER modules; modeller4.README this file; INSTALLATION how to install MODELLER; Install compilation and installation script relying on Makefile; examples\ examples; ------------------------------------------------------------------------------- Posted to: bionet.molec-model bionet.software bionet.structural-nmr bionet.xtallography bionet.software.source bionet.molbio.proteins bionet.biophysics bionet.announce ------------------------------------------------------------------------------- From owner-biophysics@net.bio.net Mon Jun 16 23:00:00 1997 Path: biosci!rutgers!gatech!usenet.INS.CWRU.Edu!peds22060.GENE.CWRU.Edu!rxw13 From: rxw13@cwru.edu (Dr. Ron) Newsgroups: bionet.biophysics Subject: Re: Frye and Edidin Date: Tue, 17 Jun 1997 09:15:55 E.S.T. Organization: Case Western Reserve University, Cleveland OH (USA) Lines: 24 Message-ID: References: <33A47448.10E32813@memex.it> NNTP-Posting-Host: peds22060.gene.cwru.edu X-Newsreader: Trumpet for Windows [Version 1.0 Rev B] > Italo Cantore writes: >I'm a medicine student, can anyone tell me more about Frye and Edidin >(1970) experiment? >Thanks It was a pioneering experiment that first demonstrated the "fluid" nature of biological membranes -- especially with regard to lateral mobility. Mouse and human cells were fused using Sendai Virus, and the distribution of species-specific cell surface markers over the chimeric progeny was measured with time, employing dual wavelenght immunofluorescence microscopy. There was a time-dependent randomization which was unaffected by energy poisons, protein synthesis inhibitors but was also temperature dependent showing an inflection popint near the phase transition temperature of the membrane lipids. THe reference is J Cell Sci 7:319, 1970 Ron Walenga Assoc Prof Peds and Physiol&Biophys CWRU School of Medicine From owner-biophysics@net.bio.net Mon Jun 16 23:00:00 1997 Path: biosci!SERVER1.RTC-ATHLONE.IE!dfaller From: dfaller@SERVER1.RTC-ATHLONE.IE ("Don Faller") Newsgroups: bionet.biophysics Subject: (none) Date: 17 Jun 1997 02:43:14 -0700 Organization: Athlone Regional College Lines: 1 Sender: daemon@net.bio.net Distribution: world Message-ID: <467947A0088@server1.rtc-athlone.ie> NNTP-Posting-Host: net.bio.net unsubscribe biophys dfaller@server1.rtc-athlone.ie From owner-biophysics@net.bio.net Mon Jun 16 23:00:00 1997 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!howland.erols.net!spring.edu.tw!news.nctu.edu.tw!thccx4!nthuls From: peggy.bbs@bbs.life.nthu.edu.tw (peggy) Newsgroups: bionet.biophysics Subject: [Organic Chemistry]D,L v.s. R,S??? Date: 17 Jun 1997 15:13:30 GMT Organization: ²MµØ¥Í©R¬ì¾Ç BBS Lines: 10 Message-ID: <3JBVGh$xv2@bbs.life.nthu.edu.tw> NNTP-Posting-Host: bbs.life.nthu.edu.tw X-Filename: bn.biophysic/M.866560555.A When it comes to the chirality, we use "(R)-,or (S)-" notation to specify the structure of a molecule. By experimental rotatory, we can also define a molecule as "D form or L form". But, what's the difference of "D-Alanine","L-Alanine", and "(S)-(+)-Alanine" which show in Merck's catalog? From owner-biophysics@net.bio.net Mon Jun 16 23:00:00 1997 Path: biosci!PEGASUS.CC.UCF.EDU!rwallace From: rwallace@PEGASUS.CC.UCF.EDU (Ronald L Wallace) Newsgroups: bionet.biophysics Subject: Ion channel/membrane modelling. Date: 17 Jun 1997 07:46:42 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 23 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Question to the biophysics net: Can anyone suggest appropriate cation- and anion-specific channels to be situated within an unsaturated lipid bilayer as a means of investigating the relationship between counterion influx and charge transfer through conjugated polyenes in membrane diacyls? An example of the difficulty involved: Gramicidin A is the "channel of choice" for design studies of cation influx, but when placed in an unsaturated lipid bilayer, it assumes a double-stranded form which resists permeant ion movement. Thus, if the lipid bilayer is unsaturated (necessary for charge transfer), then ion influx is not possible. If ion influx is possible (single-stranded form of gramicidin) then the bilayer is comprised of saturated lipids and charge transfer is not possible. So how does one select appropriate cation and anion channels to examine counterion influx and charge transfer simultaneously? Any thoughts would be helpful. Thanks. Ron Wallace From owner-biophysics@net.bio.net Mon Jun 16 23:00:00 1997 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news.maxwell.syr.edu!news.emi.com!euclid.wadsworth.org!tivol From: tivol@news.wadsworth.org (William Tivol) Newsgroups: bionet.biophysics Subject: Re: Isotopic effects of deuterium Date: 17 Jun 1997 19:45:32 GMT Organization: Wadsworth Center, NY Health Dept. Lines: 21 Message-ID: <5o6pgs$j3q@euclid.wadsworth.org> References: <339FB84C.709C@rz.uni-leipzig.de> NNTP-Posting-Host: alcor.wadsworth.org X-Newsreader: TIN [version 1.2 PL2] Gabi Lantzsch (lantzsch@rz.uni-leipzig.de) wrote: : Hi, : can anybody give me some references or other informations about the : differences of dissoziation equilibrium in H2O and D2O? : Cheers : Gabriela Dear Gabriela, Since no one else has responded, the book Nuclear and Radio- chemistry (3rd Ed.), by G. Friedlander, et al., (1981) has a few pages on this topic--419-424--and gives some referrences. These are Bigeleisen et al, Ann Rev Phys Chem 24, 407 (1973) Wolfsberg, " " " " 20, 449 (1969) Bigeleisen & Mayer, J Chem Phys 15, 261 (1947) Sutin et al, J Phys Chem 65, 1248 (1961) Bigeleisen J Chem Phys 17, 675 (1949) Melander, Isotope Effects on Reaction Rates (1960). I have not checked any of these referrences, and they are all rather old, but maybe they have what you want. Good luck. Yours, Bill Tivol From owner-biophysics@net.bio.net Mon Jun 16 23:00:00 1997 Path: biosci!agate!spool.mu.edu!uwm.edu!vixen.cso.uiuc.edu!howland.erols.net!news.apfel.de!news.rediris.es!news.upc.es!lilith.uab.es!newsmgr From: Carles Borrego i Moré Newsgroups: bionet.biophysics Subject: Deconvolution software Date: Tue, 17 Jun 1997 18:31:01 +0000 Organization: Universitat de Girona Lines: 10 Distribution: inet Message-ID: <33A6D7E5.555A@xamba.udg.es> Reply-To: ieacbm@xamba.udg.es NNTP-Posting-Host: chlorobium.udg.es Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01 (Macintosh; I; 68K) Hi, I received some information concerning powerful software to perform deconvolution and other spectral data manipulations. The programs are GRAMS32/GRAMS386 or PeakSolve from Galactic Industries (http://www. galactic.com) and PeakFit from Jandel Scientific (http://www.spss.com). Hope you like it! Carlos From owner-biophysics@net.bio.net Tue Jun 17 23:00:00 1997 Path: biosci!agate!howland.erols.net!feeder.chicago.cic.net!news.inc.net!news.itis.com!pkuzmic From: pkuzmic@biokin.com (Petr Kuzmic) Newsgroups: bionet.biophysics Subject: Program DYNAFIT update Date: Wed, 18 Jun 1997 06:30:09 GMT Organization: BioKin Consulting Lines: 14 Sender: reguser@w40.itis.com Message-ID: <5o7uur$hhk$8@bill.itis.com> Reply-To: pkuzmic@biokin.com NNTP-Posting-Host: w40.itis.com Keywords: enzyme kinetics, equilibria, software, mathematics, data analysis X-Newsreader: News Xpress 2.01 Manual pages and tutorial files for program DYNAFIT (statistical analysis of biochemical data) were updated: (1) Added detailed description of the initialization files. (2) Added tutorial on inhition of Angiotensin Converting Enzyme. Reference: P. Kuzmic (1996) Anal. Biochem. 237, 260-273. Download : http://www.biokin.com -> software. Review : http://biomednet.com/hmsbeagle/1997/09/booksoft/salert.htm ------------------------------------------------------- Petr Kuzmic, Ph.D. * http://www.biokin.com B i o K i n, Ltd. * P.O. Box 8336 * Madison WI 53708 voice 608.256.4790 * fax 608.256.1269 From owner-biophysics@net.bio.net Tue Jun 17 23:00:00 1997 Path: biosci!agate!newsfeed.kornet.nm.kr!news.maxwell.syr.edu!news.bc.net!nntp.mbnet.mb.ca!canopus.cc.umanitoba.ca!dragon.sk.sympatico.ca!news.agtac.net!rover.ucs.ualberta.ca!news.ucalgary.ca!news.uleth.ca!news From: Marc Roussel Newsgroups: bionet.biophysics Subject: Re: Michaelis-Menten (1913) Date: Tue, 17 Jun 1997 09:50:01 -0600 Organization: Department of Chemistry and Biochemistry, University of Lethbridge Lines: 15 Message-ID: <33A6B229.41C6@henri.chem.uleth.ca> References: <199706162317.SAA20334@tower.itis.com> NNTP-Posting-Host: henri.chem.uleth.ca Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01 (X11; I; OSF1 V3.2 alpha) To: Petr Kuzmic Petr Kuzmic wrote: > Does anyone know if the classic paper > Michaelis & Menten (1913) Z. Biochem. 49, 333-69 (1913) > was ever translated into English? The only thing I've ever found is a partial translation appearing in "A Documentary History of Biochemistry, 1770-1940" by M. Teich (Leicester: Leicester University, 1992). Although I've fought my way through most of this paper with the help of a dictionary, I would be very interested to know if a complete translation appears anywhere. Marc R. Roussel (roussel@henri.chem.uleth.ca) Department of Chemistry and Biochemistry University of Lethbridge From owner-biophysics@net.bio.net Tue Jun 17 23:00:00 1997 Path: biosci!Fie.com!singram From: singram@Fie.com ("Stephen F. Ingram") Newsgroups: bionet.biophysics Subject: Unsubscribe Date: 18 Jun 1997 09:33:57 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 23 Sender: daemon@net.bio.net Distribution: world Message-ID: <4B60CA64EE79D011A9EA0000C0BF90E9181239@puma.fie.com> NNTP-Posting-Host: net.bio.net I want to be unsubscribed immediately. ---------- From: Vladimir Avdonin[SMTP:avdonin@hoshi-o.physiology.uiowa.edu] Sent: Wednesday, June 18, 1997 7:58 AM To: biophys@net.bio.net Subject: Announcing: Ion Channel Mutant Database Database is specifically devoted to artificial mutations introduced into known sequences of ion channels. Record should briefly describe mutation, effect, and reference to original publication. Guest users can perform search, order periodical search with email notification, add new records or edit existing. Address: http://hoshi-o.physiology.uiowa.edu/Mutations/Home.html Vladimir Avdonin Department of Physiology and Biophysics, College of Medicine, University of Iowa From owner-biophysics@net.bio.net Tue Jun 17 23:00:00 1997 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!newsxfer3.itd.umich.edu!feeder.chicago.cic.net!chi-news.cic.net!news.uiowa.edu!not-for-mail From: Vladimir Avdonin Newsgroups: bionet.biophysics Subject: Announcing: Ion Channel Mutant Database Date: Wed, 18 Jun 1997 09:57:37 -0500 Organization: The University of Iowa Lines: 11 Message-ID: <33A7F75B.1972@hoshi-o.physiology.uiowa.edu> Reply-To: avdonin@hoshi-o.physiology.uiowa.edu NNTP-Posting-Host: hoshi-g.physiology.uiowa.edu Mime-Version: 1.0 Content-Type: text/plain; charset=koi8-r Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0Gold (Macintosh; U; PPC) Database is specifically devoted to artificial mutations introduced into known sequences of ion channels. Record should briefly describe mutation, effect, and reference to original publication. Guest users can perform search, order periodical search with email notification, add new records or edit existing. Address: http://hoshi-o.physiology.uiowa.edu/Mutations/Home.html Vladimir Avdonin Department of Physiology and Biophysics, College of Medicine, University of Iowa From owner-biophysics@net.bio.net Tue Jun 17 23:00:00 1997 From: "Lazrak" Subject: Resume: Electrophysiology and Biophysics Newsgroups: bionet.biophysics Organization: Home Message-ID: <01bc7b02$e7fd00c0$5ee92581@ahmed> X-Newsreader: Microsoft Internet News 4.70.1161 NNTP-Posting-Host: 129.37.233.94 Date: 17 Jun 97 09:44:35 GMT Lines: 7 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news.maxwell.syr.edu!newsm.ibm.net!ibm.net!news1.ibm.net!129.37.233.94 Available immidiatly Please have a look at CV by following this link: http://www.geocities.com/CollegePark/Quad/9767/cv.html Thank you Lazrak.Ahmed@ibm.net From owner-biophysics@net.bio.net Tue Jun 17 23:00:00 1997 Path: biosci!agate!newsfeed.kornet.nm.kr!newsfeed.dacom.co.kr!newsfeed.internetmci.com!howland.erols.net!news.apfel.de!fu-berlin.de!cs.tu-berlin.de!uni-duisburg.de!news.rz.uni-duesseldorf.de!usenet From: Nicole Klapka Newsgroups: bionet.biophysics Subject: Poliovirus, 3D structure Date: Wed, 18 Jun 1997 22:52:17 +0200 Organization: =?iso-8859-1?Q?Heinrich=2DHeine=2DUniversit=E4t=20D=FCsseldorf?= Lines: 11 Message-ID: <33A84A81.44D7@mail.rz.uni-duesseldorf.de> Reply-To: Nicole.Klapka@uni-duesseldorf.de NNTP-Posting-Host: isdn99.extern.uni-duesseldorf.de Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0 (Win95; I) Hello everybody, I am working on an essay about 'Cis-element, oriR, involved in the initiation of (-) strand poliovirus RNA: a quasi-globular multi-domain RNA structure maintained by tertiary ('kissing') interactions. Could you help me to find a database where I could get some 3-dimensional pictures of naked poliovirus without the capsid? Thanks for your help..... Nicole From owner-biophysics@net.bio.net Wed Jun 18 23:00:00 1997 Message-ID: <33A16613.23D4@scicentral.com> Date: Fri, 13 Jun 1997 11:24:03 -0400 From: SciCentral Reply-To: scicentral@scicentral.com Organization: SciLink X-Mailer: Mozilla 3.0Gold (Win95; I) MIME-Version: 1.0 Newsgroups: bionet.biophysics Subject: BEST BIOPHYSICS DIRECTORIES Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit NNTP-Posting-Host: 166.72.73.161 Lines: 35 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!news.sgi.com!news.maxwell.syr.edu!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!newsm.ibm.net!ibm.net!news1.ibm.net!166.72.73.161 Dear Colleagues, We invite you to attend an opening in your honor at: http://www.scicentral.com This unique Web site has been created for scientists and engineers by scientists who know your needs. Just three clicks will get you everywhere. http://www.scicentral.com includes only the most valuable directories on the Web. They currently constitute a gateway to over 50,000 scientific sites pertaining to over 120 specialties in science and engineering ranging from health, biological, earth, physical, and engineering sciences, to government and institutional listings, and including the Commerce Business Daily and Medline--all free. We envision http://www.scicentral.com as the science and engineering hub of the World Wide Web, a place for professionals to gather and discuss the complex issues facing us all as we approach the 21st century. This is where you can make your opinions known. We plan editorials, chat rooms, news. We will continue to be responsive to your suggestions. Please visit http://www.scicentral.com often and bring your colleagues. Ellen S. Uffen, Ph.D. President, SciLink, Inc. Guy Orgambide, Ph.D. Chief Executive Officer SciLink, Inc. Robert L. Uffen, Ph.D Professor Emeritus Michigan State University From owner-biophysics@net.bio.net Wed Jun 18 23:00:00 1997 Path: biosci!daresbury!not-for-mail From: "O. Doering" Newsgroups: bionet.biophysics Subject: Re: Isotopic effects of deuterium Date: 19 Jun 1997 11:22:28 +0100 Organization: Allgemeine Botanik u. Bot. Garten Lines: 35 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5ob194$s15@mserv1.dl.ac.uk> Original-To: biophys@dl.ac.uk X-Pmrqc: 1 Gabi Lantzsch wrote: > Hi, > can anybody give me some references or other informations about the > differences of dissoziation equilibrium in H2O and D2O? > Cheers > Gabriela > Hello Gabi, pherhaps some information can be found in: Berezin Alexander A. Interdiscipl. Sci. Rev. 17 (1) (1992), 74-80 Isotopicity. Implications and Applications Northrop D.B. Meth. Enzymol., Academic Pr. 87 (1982), 607-625 Deuterium and tritium kinetic isotope effects on initial rates Venkatasubban K.S. and Schowen Richard L. CRC Crit. Rev. Biochem. 17 (1) (1984), 1-44 The proton inventory technique or in the references therein. An introduction to heavy water is given in the Britannica. Greetings O. Doering University of Hamburg Inst. Botany Ohnhorststr. 18 D-22609 Hamburg FRG Phone: +49 -40 82282348 FAX: +49 -40 82282254 From owner-biophysics@net.bio.net Wed Jun 18 23:00:00 1997 Path: biosci!agate!hammer.uoregon.edu!newsfeed.internetmci.com!newsfeed.sovam.com!sovam!demos!news1.relcom.ru!ns.serpukhov.su!usenet From: Kirill Kochetkov Newsgroups: bionet.biophysics Subject: Ion channel Date: Thu, 19 Jun 1997 11:36:26 -0700 Organization: ibc Lines: 4 Message-ID: <33A97C2A.10DC@hotmail.com> References: <33A5E464.4487@rockvax.rockefeller.edu> NNTP-Posting-Host: vela.ibioc.serpukhov.su Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 2.0 (Win16; I) Please if someone have articles related whith ion-channel and patch-clamp method from J. Am. Physiol. If it possible please send its me (kvkoch@hotmail.com) thank you. From owner-biophysics@net.bio.net Thu Jun 19 23:00:00 1997 Path: biosci!daresbury!not-for-mail From: Tim Hubbard Newsgroups: bionet.biophysics Subject: FINAL CALL FOR APPLICANTS: FEBS advanced course: frontiers of protein structure prediction 1997 Date: 20 Jun 1997 10:34:34 +0100 Lines: 76 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5odira$9q7@mserv1.dl.ac.uk> X-Sender: th@netra.sanger.ac.uk Original-To: pdb-l@pdb.pdb.bnl.gov, bioforum@dl.ac.uk, bionews@dl.ac.uk, biophys@dl.ac.uk, bio-soft@dl.ac.uk, comp-bio@dl.ac.uk, methods@dl.ac.uk, molmodel@dl.ac.uk, proteins@dl.ac.uk, xtal-log@dl.ac.uk, str-nmr@dl.ac.uk Final call for applications =========================== ** NOTE ** No applications received after 30th June 1997 will be considered. FEBS advanced course: frontiers of protein structure prediction 1997 http://predict.sanger.ac.uk/irbm-course97/ The course, which is being run for the second time (see http://predict.sanger.ac.uk/irbm-course95), is directed at young scientists with some experience and a strong interest in protein structure and structure prediction who wish to learn about the latest developments in the field. The aim of the workshop is to predict as much as possible about the structure of a number of proteins of biological interest, taking advantage of the most recent methodologies for fold recognition and ab initio prediction. The participants will be divided into working groups assisted by an instructor. Each group will be equipped with state of the art software and hardware (kindly provided by Silicon Graphics) and assigned the sequences of proteins whose structure has to be predicted. The predictions will be made public as a technical document and also available via World Wide Web. Suggestions for target proteins can also be submitted by non-participants via WWW (see accompanying email) Organizers: Tim Hubbard (Sanger Centre), Anna Tramontano (IRBM) Instructors: G. Barton (Oxford), T. Hubbard (Cambridge), D. Jones (London), M. Sippl (Salzburg), A. Valencia (Madrid), B. Rost (Heidelberg). Lecturers: A. Lesk (Cambridge), J. Moult (Rockville), A. Murzin (Cambridge) Dates: 7-20 October 1997 Deadline for applications: 30th June 1997. Registration fee 1200 DM (includes accomodation and meals) Location: IRBM (Istituto di Ricerche di Biologia Molecolare) Pomezia, Rome, Italy Further information and on-line application forms: http://predict.sanger.ac.uk/irbm-course97/ Prof. Anna Tramontano IRBM, Via Pontina Km 30.600 I-00040 Pomezia (Rome) Tel: +39 6 91093207 Fax: +39 6 91093654 email: tramontano@irbm.it Tim Hubbard, Anna Tramontano ------------------------------------------------------------------------- Dr Tim Hubbard email: th@sanger.ac.uk Sanger Centre Tel (direct): +44 1223 494983 Wellcome Trust Genome Campus Tel (switch): +44 1223 834244 Hinxton Fax: +44 1223 494919 Cambridgeshire. CB10 1SA. URL: http://www.sanger.ac.uk/ ------------------------------------------------------------------------- ------------------------------------------------------------------------- Dr Tim Hubbard email: th@sanger.ac.uk Sanger Centre Tel (direct): +44 1223 494983 Wellcome Trust Genome Campus Tel (switch): +44 1223 834244 Hinxton Fax: +44 1223 494919 Cambridgeshire. CB10 1SA. URL: http://www.sanger.ac.uk/ ------------------------------------------------------------------------- From owner-biophysics@net.bio.net Thu Jun 19 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!feeder.chicago.cic.net!chi-news.cic.net!news.inc.net!news.itis.com!pkuzmic From: pkuzmic@biokin.com (Petr Kuzmic) Newsgroups: bionet.biophysics Subject: Re: Michaelis-Menten (1913) Date: Fri, 20 Jun 1997 17:07:38 GMT Organization: BioKin Consulting Lines: 27 Sender: reguser@j41.itis.com Message-ID: <5oed20$fup$1@bill.itis.com> References: <199706162317.SAA20334@tower.itis.com> <33A6B229.41C6@henri.chem.uleth.ca> NNTP-Posting-Host: j41.itis.com X-Newsreader: News Xpress 2.01 >> Does anyone know if the classic paper >> Michaelis & Menten (1913) Z. Biochem. 49, 333-69 (1913) >> was ever translated into English? > >The only thing I've ever found is a partial translation appearing in "A >Documentary History of Biochemistry, 1770-1940" by M. Teich (Leicester: >Leicester University, 1992). Although I've fought my way through most >of this paper with the help of a dictionary, I would be very interested >to know if a complete translation appears anywhere. > > Marc R. Roussel Jim Reid mailed to P. Kuzmic: Yes - I've seen a translation in a book 'The foundation stones of Biochemistry' along with a short piece about M & M and some other classic papers to boot. Unfortunatly I can't remember the ed. or the publisher but you should be able to find it. Good luck and enjoy it, Jim Reid ------------------------------------------------------- Petr Kuzmic, Ph.D. * http://www.biokin.com B i o K i n, Ltd. * P.O. Box 8336 * Madison WI 53708 voice 608.256.4790 * fax 608.256.1269 From owner-biophysics@net.bio.net Thu Jun 19 23:00:00 1997 Path: biosci!BIOKIN.COM!pkuzmic From: pkuzmic@BIOKIN.COM (Petr Kuzmic) Newsgroups: bionet.biophysics Subject: Program DYNAFIT update Date: 20 Jun 1997 09:51:11 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 19 Sender: daemon@net.bio.net Distribution: world Message-ID: <199706201651.LAA27932@tower.itis.com> NNTP-Posting-Host: net.bio.net This is a message to all users of the program DYNAFIT [P. Kuzmic (1996) Anal. Biochem. 237, 260-273] ----------------------------------------------------------------- A classic example problem was added to the test suite, in which we determine the reaction mechanism for the isomerization of alpha-pinene from the reaction progress: Data: Seber & Wild (1989) "Nonlinear Regression", p. 551 Input: http://www.biokin.com/dynafit/test/pinene/pinene.txt Output: http://www.biokin.com/dynafit/manual/img/pinene/pin2.gif Text: http://www.biokin.com/dynafit/output/pinene/pinene.txt Download: http://www.biokin.com -> software Review: http://biomednet.com/hmsbeagle/1997/09/booksoft/salert.htm ----------------------------------------------------------------- pkuzmic@biokin.com | http://www.biokin.com | fax 608.256.1269 From owner-biophysics@net.bio.net Thu Jun 19 23:00:00 1997 Path: biosci!daresbury!not-for-mail From: Tim Hubbard Newsgroups: bionet.biophysics Subject: FINAL CALL FOR TARGETS: have you a protein to predict? Date: 20 Jun 1997 10:34:41 +0100 Lines: 41 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5odirh$9qp@mserv1.dl.ac.uk> X-Sender: th@netra.sanger.ac.uk Original-To: pdb-l@pdb.pdb.bnl.gov, bioforum@dl.ac.uk, bionews@dl.ac.uk, biophys@dl.ac.uk, bio-soft@dl.ac.uk, comp-bio@dl.ac.uk, methods@dl.ac.uk, molmodel@dl.ac.uk, proteins@dl.ac.uk, xtal-log@dl.ac.uk, str-nmr@dl.ac.uk Final call for prediction targets ================================= ** NOTE ** No targets received after 30th June 1997 will be considered for prediction during this course. The previous mail to this list announced the FEBS advanced course: frontiers of protein structure prediction 1997. The aim of the workshop is to predict as much as possible about the structure of a number of proteins of biological interest, taking advantage of the most recent methodologies for fold recognition and ab initio prediction. If you are interested in a structure prediction being made on a protein for which there is no sign of an experimental structure and does not appear to be homologous to any known structure, please consider submitting it as a target for this course. For further information and on-line target submission forms see: http://predict.sanger.ac.uk/irbm-course97/ For the automatic analysis carried out on the 113 targets received for the 1995 course and the predictions made for 17 of them see: http://predict.sanger.ac.uk/irbm-course95/ Tim Hubbard, (Sanger Centre) Anna Tramontano, (IRBM) ------------------------------------------------------------------------- Dr Tim Hubbard email: th@sanger.ac.uk Sanger Centre Tel (direct): +44 1223 494983 Wellcome Trust Genome Campus Tel (switch): +44 1223 834244 Hinxton Fax: +44 1223 494919 Cambridgeshire. CB10 1SA. URL: http://www.sanger.ac.uk/ ------------------------------------------------------------------------- From owner-biophysics@net.bio.net Thu Jun 19 23:00:00 1997 Path: biosci!biosci!not-for-mail From: Tim Hubbard Newsgroups: bionet.biophysics,bionet.info-theory,bionet.molbio.proteins,bionet.molec-model,bionet.structural-nmr,bionet.xtallography Subject: FINAL CALL FOR TARGETS: have you a protein to predict? Date: 20 Jun 1997 10:38:43 -0700 Organization: Sanger Centre Lines: 36 Sender: daemon@net.bio.net Distribution: world Message-ID: <33AA5305.446B@sanger.ac.uk> NNTP-Posting-Host: net.bio.net Xref: biosci bionet.biophysics:3172 bionet.info-theory:5281 bionet.molbio.proteins:11023 bionet.molec-model:1616 bionet.structural-nmr:2054 bionet.xtallography:3560 Final call for prediction targets ================================= ** NOTE ** No targets received after 30th June 1997 will be considered for prediction during this course. The previous mail to this list announced the FEBS advanced course: frontiers of protein structure prediction 1997. The aim of the workshop is to predict as much as possible about the structure of a number of proteins of biological interest, taking advantage of the most recent methodologies for fold recognition and ab initio prediction. If you are interested in a structure prediction being made on a protein for which there is no sign of an experimental structure and does not appear to be homologous to any known structure, please consider submitting it as a target for this course. For further information and on-line target submission forms see: http://predict.sanger.ac.uk/irbm-course97/ For the automatic analysis carried out on the 113 targets received for the 1995 course and the predictions made for 17 of them see: http://predict.sanger.ac.uk/irbm-course95/ Tim Hubbard, (Sanger Centre) Anna Tramontano, (IRBM) From owner-biophysics@net.bio.net Thu Jun 19 23:00:00 1997 Path: biosci!biosci!not-for-mail From: Tim Hubbard Newsgroups: bionet.biophysics,bionet.info-theory,bionet.molbio.proteins,bionet.molec-model,bionet.structural-nmr,bionet.xtallography Subject: FINAL CALL FOR APPLICANTS: FEBS advanced course: frontiers of protein Date: 20 Jun 1997 10:38:27 -0700 Organization: Sanger Centre Lines: 63 Sender: daemon@net.bio.net Distribution: world Message-ID: <33AA51D3.2781@sanger.ac.uk> NNTP-Posting-Host: net.bio.net Xref: biosci bionet.biophysics:3171 bionet.info-theory:5280 bionet.molbio.proteins:11022 bionet.molec-model:1615 bionet.structural-nmr:2053 bionet.xtallography:3559 Final call for applications =========================== ** NOTE ** No applications received after 30th June 1997 will be considered. FEBS advanced course: frontiers of protein structure prediction 1997 http://predict.sanger.ac.uk/irbm-course97/ The course, which is being run for the second time (see http://predict.sanger.ac.uk/irbm-course95), is directed at young scientists with some experience and a strong interest in protein structure and structure prediction who wish to learn about the latest developments in the field. The aim of the workshop is to predict as much as possible about the structure of a number of proteins of biological interest, taking advantage of the most recent methodologies for fold recognition and ab initio prediction. The participants will be divided into working groups assisted by an instructor. Each group will be equipped with state of the art software and hardware (kindly provided by Silicon Graphics) and assigned the sequences of proteins whose structure has to be predicted. The predictions will be made public as a technical document and also available via World Wide Web. Suggestions for target proteins can also be submitted by non-participants via WWW (see accompanying email) Organizers: Tim Hubbard (Sanger Centre), Anna Tramontano (IRBM) Instructors: G. Barton (Oxford), T. Hubbard (Cambridge), D. Jones (London), M. Sippl (Salzburg), A. Valencia (Madrid), B. Rost (Heidelberg). Lecturers: A. Lesk (Cambridge), J. Moult (Rockville), A. Murzin (Cambridge) Dates: 7-20 October 1997 Deadline for applications: 30th June 1997. Registration fee 1200 DM (includes accomodation and meals) Location: IRBM (Istituto di Ricerche di Biologia Molecolare) Pomezia, Rome, Italy Further information and on-line application forms: http://predict.sanger.ac.uk/irbm-course97/ Prof. Anna Tramontano IRBM, Via Pontina Km 30.600 I-00040 Pomezia (Rome) Tel: +39 6 91093207 Fax: +39 6 91093654 email: tramontano@irbm.it Tim Hubbard, Anna Tramontano From owner-biophysics@net.bio.net Fri Jun 20 23:00:00 1997 Path: biosci!daresbury!not-for-mail From: Newsgroups: bionet.biophysics Subject: Hydrophobic Effects in Bioenergetics < > PENTCHO VALEV Date: 21 Jun 1997 09:28:09 +0100 Lines: 31 Sender: lpddis