From owner-structural-nmr@net.bio.net Tue Apr 01 23:00:00 1997 Path: biosci!COSY.UTMB.EDU!bruce From: bruce@COSY.UTMB.EDU ("Bruce A. Luxon") Newsgroups: bionet.structural-nmr Subject: Re: Model-free Software Date: 2 Apr 1997 11:36:25 -0800 Organization: Sealy Center for Structural Biology Lines: 48 Sender: daemon@net.bio.net Distribution: world Message-ID: <9704021337.ZM12371@cosy.utmb.edu> Reply-To: bruce@nmr.utmb.edu NNTP-Posting-Host: net.bio.net Thanks to the following people for their much appreciated help in running down references to my post for Model-Free software: Jarle Lillemoen jarle@noddy.cm.UTEXAS.edu Jaison Jacob jj8a@mcconnell.chem.virginia.edu Susan Baxter baxter@wadsworth.org Kevin Gardner gardner@pound.med.UTORONTO.CA Arthur G. Palmer agp6@COLUMBIA.edu Dr. Art Palmer's lab at Columbia distributes a software package titled "modelfree" which you can read about and download from his Website: http://convex.hhmi.columbia.edu/palmer/palmer_group.html This site is well set-up and well documented. There are also a number of references to this technique on Neil Farrow's home page in Louis Kay's group at http://abragam.med.utoronto.ca/UTNMR.html Thanks again to all, Bruce On Apr 1, 10:58am, Bruce A. Luxon wrote: > Subject: Model-free Software > Can someone point to a URL or two where I can look up some > software utilizing the model-free formalism (per Lipari & Szabo) > for the analysis of NMR relaxation rates? > > All help much appreciated, > > Bruce > >-- End of excerpt from Bruce A. Luxon -- *=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-* * Bruce A. Luxon, Ph.D * * Assistant Professor * * Sealy Center for Structural Biology U * Dept. of Human Biological Chemistry & Genetics T * University of Texas Medical Branch M * Galveston, TX 77555-1157 B * * * (409)747-6802; Fax (409)747-6850 http://www.hbcg.utmb.edu/ * * bruce@nmr.utmb.edu http://www.nmr.utmb.edu/ * *=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-* From owner-structural-nmr@net.bio.net Tue Apr 01 23:00:00 1997 Path: biosci!sfu.ca!cushley From: cushley@sfu.ca (Robert Cushley) Newsgroups: bionet.structural-nmr Subject: Re: Model-free Software - Thanks Date: 2 Apr 1997 14:16:27 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 70 Sender: daemon@net.bio.net Distribution: world Message-ID: <199704022217.WAA08711@beaufort.sfu.ca> References: <9704021337.ZM12371@cosy.utmb.edu> NNTP-Posting-Host: net.bio.net And thanks to you, Bruce, for summarizing the replies and posting the result to us all. It's nice when people do this with multiple replies. The result, below, is currently saved in the appropriate folder ready for use. Bob. > > Thanks to the following people for their much appreciated help in running > down references to my post for Model-Free software: > > Jarle Lillemoen jarle@noddy.cm.UTEXAS.edu > Jaison Jacob jj8a@mcconnell.chem.virginia.edu > Susan Baxter baxter@wadsworth.org > Kevin Gardner gardner@pound.med.UTORONTO.CA > Arthur G. Palmer agp6@COLUMBIA.edu > > Dr. Art Palmer's lab at Columbia distributes a software package > titled "modelfree" which you can read about and download from his > Website: http://convex.hhmi.columbia.edu/palmer/palmer_group.html > This site is well set-up and well documented. > > There are also a number of references to this technique on Neil Farrow's > home page in Louis Kay's group at http://abragam.med.utoronto.ca/UTNMR.html > > Thanks again to all, > > Bruce > > On Apr 1, 10:58am, Bruce A. Luxon wrote: > > Subject: Model-free Software > > Can someone point to a URL or two where I can look up some > > software utilizing the model-free formalism (per Lipari & Szabo) > > for the analysis of NMR relaxation rates? > > > > All help much appreciated, > > > > Bruce > > > >-- End of excerpt from Bruce A. Luxon > > > > -- > > *=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-* > * Bruce A. Luxon, Ph.D * > * Assistant Professor * > * Sealy Center for Structural Biology U > * Dept. of Human Biological Chemistry & Genetics T > * University of Texas Medical Branch M > * Galveston, TX 77555-1157 B > * * > * (409)747-6802; Fax (409)747-6850 http://www.hbcg.utmb.edu/ * > * bruce@nmr.utmb.edu http://www.nmr.utmb.edu/ * > *=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-* > ************************************************************************ Professor Robert J. Cushley Institute of Molecular Biology & Biochemistry Simon Fraser University Burnaby, BC V5A 1S6 Canada Phone:(604)291-4230 Fax: (604)291-5583 *************** NEW! NEW! NEW! - Catch our new web page at http://www.sfu.ca/~cushley ************************************************************************ From owner-structural-nmr@net.bio.net Tue Apr 01 23:00:00 1997 Path: biosci!NERO.CSB.YALE.EDU!suganthi From: suganthi@NERO.CSB.YALE.EDU (Suganthi B) Newsgroups: bionet.structural-nmr Subject: help with Sun problems Date: 2 Apr 1997 13:53:43 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 45 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Dear all, HELP--I need some suggestions: I am currently having problems with a SUN workstation that our group owns. We are not under warranty and do not have a service contract with SUN. We have a SPARCstation IPX, OS: SunOS 4.1.3.(Main Memory 32 MB). The problem: The boot prompt comes up on the screen all of a sudden and it freezes till I type c for clear. This means that somebody has to physically be at the console to ensure that all processes keep going (highly inconvenient when I am processing 3d data sets). The appearance of the boot prompt is accompanied with a" vmunix : zs3:silo overflow message" on the console window most of the time. Sometimes the silo overflow message appears without the boot prompt. This has been happening for about three weeks now. After talking to various people (mainly on the internet), it appears that this error is somehow related to the mouse and that zs3 is the B channel on the second on-board z8530, handling the mouse. Is it possible that it is a faulty z8530 chip? Whatever it is, it is not clear to me as to why the boot prompt pops up and freezes the system. This also happens when nobody is logged in. I have called SUN a couple of times and have not been able to reach anyone yet--will keep trying. From my naive understanding of the problem, I may try just changing mouses---but even I think it is not going to help. Thanks for any advice. Sincerely, Suganthi Balasubramanian MB & B Dept. Yale University New Haven, CT 06520. Ph: (203) 432-9841. P.S. Hey Kevin G, I hope I receive your e-mail first thing tomorrow morning. From owner-structural-nmr@net.bio.net Wed Apr 02 23:00:00 1997 Path: biosci!agate!howland.erols.net!newsxfer.itd.umich.edu!newsxfer3.itd.umich.edu!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!cam-news-feed2.bbnplanet.com!sol.caps.maine.edu!discovery.umeres.maine.edu!Keith_Hutchison From: Keith_Hutchison@discovery.umeres.maine.edu (Keith Hutchison) Newsgroups: bionet.structural-nmr Subject: Faculty Position - Protein Biochemistry Date: Thu, 3 Apr 1997 08:53:51 -0500 Organization: University of Maine Lines: 18 Sender: Keith_Hutchison@discovery.umeres.maine.edu Message-ID: NNTP-Posting-Host: discovery.umeres.maine.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 8bit Content-ID: X-Gateway: NASTA Gate 1.18 for FirstClass(R) PROTEIN BIOCHEMIST: The Department of Biochemistry, Microbiology and Molecular Biology at the University of Maine seeks a biochemist with research interests in protein-protein or protein-nucleic acid interactions to fill a tenure track position at either the Assistant or Associate Professor level, available September 1, 1997. Additional research experience in the molecular genetics or developmental biology of aquatic organisms is desirable. A Ph.D. and postdoctoral experience are required. The successful candidate will be expected to maintain a vigorous, extramurally funded research program and contribute to teaching of the undergraduate and graduate curricula in Biochemistry. Minimum salary is $40,000 per academic year. Send a cover letter, description of research interests, curriculum vitae and three letters of recommendation to: Dr. Michael E. Vayda, Chair, Biochemistry Search Committee, 5735 Hitchner-BMMB, University of Maine, Orono, ME 04469-5735. Review of applications will commence June 1, 1997 and applications will be considered until a suitable candidate is located. Women and minorities are encouraged to apply. The University of Maine is an Affirmative Action/Equal Employment Opportunity From owner-structural-nmr@net.bio.net Thu Apr 03 23:00:00 1997 Path: biosci!daresbury!uninett.no!nntp.uio.no!news.maxwell.syr.edu!news.cis.ohio-state.edu!nntp.sei.cmu.edu!bb3.andrew.cmu.edu!andrew.cmu.edu!lgb+ From: Laura G Barrientos Newsgroups: bionet.structural-nmr Subject: test Date: Fri, 4 Apr 1997 17:04:57 -0500 Organization: Chemistry, Carnegie Mellon, Pittsburgh, PA Lines: 1 Message-ID: NNTP-Posting-Host: andrew.cmu.edu This is just a test. From owner-structural-nmr@net.bio.net Thu Apr 03 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!news.maxwell.syr.edu!news.cis.ohio-state.edu!nntp.sei.cmu.edu!bb3.andrew.cmu.edu!andrew.cmu.edu!lgb+ From: Laura G Barrientos Newsgroups: bionet.structural-nmr Subject: Program for vector representation of the coherence evolution. Date: Fri, 4 Apr 1997 17:25:56 -0500 Organization: Chemistry, Carnegie Mellon, Pittsburgh, PA Lines: 6 Message-ID: <4nFLzoy00iWWIAn2BG@andrew.cmu.edu> NNTP-Posting-Host: andrew.cmu.edu Hello, Does anyone know about a program that could simulate in real-time the coherence pathway, illustrated by spins in the three dimensional plane, when a specific pulse sequence (for 1D, 2D, or 3D) and phase cycling is applied? Thanks, Laura. From owner-structural-nmr@net.bio.net Sat Apr 05 23:00:00 1997 Path: biosci!biosci!not-for-mail From: biodigm@dial.pipex.com (M J Geisow) Newsgroups: bionet.molbio.proteins,bionet.structural-nmr Subject: ANNOUNCE: POPE '97 Genome-Proteome-Function - Conference Date: 6 Apr 1997 09:03:43 -0700 Organization: UUNet PIPEX server (post doesn't reflect views of UUNet PIPEX) Lines: 36 Sender: daemon@net.bio.net Distribution: world Message-ID: <3342faa9.56116982@news.dial.pipex.com> NNTP-Posting-Host: net.bio.net Xref: biosci bionet.molbio.proteins:10423 bionet.structural-nmr:1850 The Programme for the Perspectives on Protein Engineering Conference (Norwich Norfolk, UK 28 June - 1 July 1997) is now published, with speaker abstracts received to date at the Web site: http://www.biodigm.com/pope/pope6.htm A new conference rate for non-profit organisations and further reductions for pre-doctoral students is posted at the site Day 1 Genome - Proteome Opening speakers: J Craig Venter (TIGR) Amos Bairoch (Geneva) Mike Bevan (Norwich) Iain Campbell (Oxford) Minisymposia Membrane protein expression & structure Collaboration in bioinformatics via WWW Protein characterisation Metal Centres in Proteins Day 2 Protein Design & Expression Please See site for speakers Day 3 Structure-function: biocatalysis & plant protein engineering Please See site for speakers POPE 6 Secretariat biodigm@dial.pipex.com 64, Langdale Grove Bingham, NG13 8SS, UK Fax +44 1 949 876 156 M Geisow(UK Structural Biology CEC Contact Group representative) M Geisow(UK Structural Biology CEC Contact Group representative) From owner-structural-nmr@net.bio.net Sat Apr 05 23:00:00 1997 Path: biosci!ALCHEMIST.CHEM.MQ.EDU.AU!PKARUSO From: PKARUSO@ALCHEMIST.CHEM.MQ.EDU.AU ("peter karuso") Newsgroups: bionet.structural-nmr Subject: Re: Program for vector representation of the coherence evol Date: 6 Apr 1997 15:25:04 -0700 Organization: School of Chemistry, Macquarie Uni Lines: 31 Sender: daemon@net.bio.net Distribution: world Message-ID: <14F4D6F7435@alchemist.chem.mq.edu.au> Reply-To: pkaruso@alchemist.chem.mq.edu.au NNTP-Posting-Host: net.bio.net >To: str-nmr@net.bio.net >From: Laura G Barrientos >Subject: Program for vector representation of the coherence evolution. >Date: Fri, 4 Apr 1997 17:25:56 -0500 > >Hello, >Does anyone know about a program that could simulate in real-time the >coherence pathway, illustrated by spins in the three dimensional plane, >when a specific pulse sequence (for 1D, 2D, or 3D) and phase cycling is >applied? >Thanks, Laura. > > I'm sure Laura's question would be of interest to many of the str-nmr list so if anyone has an answer, please post it to the newsgroup, not just the sender. Thanks, Peter ********************************************************************** Dr. Peter Karuso _--_|\ Senior Lecturer Email: peter.karuso@mq.edu.au / CHEM \ School of Chemistry Voice: +61 2 9850-8290 (Office) \_.--._* Macquarie University +61 2 9850-8305 (Lab) * v NSW 2109 Australia FAX: +61-2-9850-8313 * * http://www.chem.mq.edu.au/academics/karuso.htm . http://www.chem.mq.edu.au/~dmoran/grphome.html * ********************************************************************** From owner-structural-nmr@net.bio.net Sun Apr 06 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!cpk-news-hub1.bbnplanet.com!su-news-hub1.bbnplanet.com!news.bbnplanet.com!theplanet.net!news From: Simon Brocklehurst Newsgroups: bionet.structural-nmr Subject: Re: Raster 3D Quality Date: Mon, 07 Apr 1997 21:40:48 +0100 Organization: University of Oxford Lines: 37 Message-ID: <33495BD0.1578@bioch.ox.ac.uk> References: Reply-To: smb@bioch.ox.ac.uk NNTP-Posting-Host: n70i235.c1r5.pol.co.uk Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01Gold (Win95; I) Mark J Howard wrote: > > > Has any one found a way around this, or got any ideas? > Hi Mark, The problem is that a screen resolution image looks great on screen, but terrible on paper. So you're resampling the image, you have to make sure that your final PostScript bitmap resolution matches the resolution of the printer you're using AND that there is enough information in the rgb input file you're using to allow the increased resolution to be useful. What this means is that before you create your rgb picture, you need to decide on the resolution and size of the PostScript image you need. Then figure out, how much bigger you need to make the rgb picture so that when you resample (shrink the image, and up the number of dpi), you end up with a high (printer) resolution image. Depends what you're wanting the pictures for, I've found that actually a 180 dpi bitmap colour print looks good enough for say a colour overhead. Not necessarily good enough for a paper though (depends how fantastic you want the pictures to look.) Also, watch out for the file size of your image e.g. A4 24-bit 360 dpi bit map is quite large. Hope that helps a bit. All the best, -- Simon From owner-structural-nmr@net.bio.net Sun Apr 06 23:00:00 1997 Path: biosci!bcm.tmc.edu!cs.utexas.edu!howland.erols.net!feed1.news.erols.com!dispatch.news.demon.net!demon!fido.news.demon.net!demon!newsgate.unisource.nl!surfnet.nl!ruu.nl!not-for-mail From: Gilles Rubinstenn Newsgroups: bionet.structural-nmr Subject: Re: Program for vector representation of the coherence evolution. Date: Mon, 07 Apr 1997 15:08:37 +0100 Organization: Bijvoet Center for Biomolecular Research Message-ID: <3348FFE5.41C6@nmr.chem.ruu.nl> References: <4nFLzoy00iWWIAn2BG@andrew.cmu.edu> NNTP-Posting-Host: rhino.chem.ruu.nl Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01 (X11; I; IRIX 5.3 IP22) To: Laura G Barrientos Lines: 37 > > Hello, > Does anyone know about a program that could simulate in real-time the > coherence pathway, illustrated by spins in the three dimensional plane, > when a specific pulse sequence (for 1D, 2D, or 3D) and phase cycling is > applied? > Thanks, Laura. Dear Laura and Peter. There is a very nice package for writing pulse sequences and displaying the evolution of spins system (limited to 2 spins in liquid but including solid state systems) under these condition. The software is called PENCIL and is written by Jonathan Callahan. The companion software for the writing of pulse sequences is Pulse_Writer. Both are available in the following home page : http://strange.engr.washington.edu/PENCIL/Pencil_home_page.html The source code is also available. I hope this will help you. Gilles. ---------------------------------------------------- Dr. Gilles Rubinstenn Department of NMR Spectroscopy Bijvoet Center for Biomolecular Research Utrecht University Padualaan 8, 3584 CH Utrecht, the Netherlands phone: 31-30-2532652, fax: 31-30-2537623 e-mail: rubi@nmr.chem.ruu.nl www: http://www-nmr.chem.ruu.nl/users/rubi/rubi.html ---------------------------------------------------- From owner-structural-nmr@net.bio.net Sun Apr 06 23:00:00 1997 Path: biosci!daresbury!lyra.csx.cam.ac.uk!news.ox.ac.uk!ocms0001 From: ocms0001@ermine.ox.ac.uk (Dennis Benjamin) Newsgroups: bionet.structural-nmr Subject: Re: Raster 3D Quality Date: 7 Apr 1997 19:31:25 GMT Organization: Oxford University, England Lines: 15 Distribution: world Message-ID: <5ibi2d$ags@news.ox.ac.uk> References: NNTP-Posting-Host: ermine.ox.ac.uk X-Newsreader: TIN [version 1.2 PL2] Mark J Howard (mjh2@MOLE.BIO.CAM.AC.UK) wrote: : Has any one found a way around this, or got any ideas? While I can't answer your question about molscript, I'd like to point out a molecular graphics program called MOLMOL. It is very powerful, and you can output files to be rendered in POV-RAY (a freeware ray tracing program) at any resolution you want. It's a fantastic program, I'd be very surprised if there was anything you could do in molscript that you couldn't do in molmol. http://www.mol.biol.ethz.ch/wuthrich/software/molmol/ From owner-structural-nmr@net.bio.net Sun Apr 06 23:00:00 1997 Path: biosci!MOLE.BIO.CAM.AC.UK!mjh2 From: mjh2@MOLE.BIO.CAM.AC.UK (Mark J Howard) Newsgroups: bionet.structural-nmr Subject: Raster 3D Quality Date: 7 Apr 1997 10:40:24 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 37 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Dear All, I wonder if anyone can help us with a problem using the 'render' program from raster3D with molscript output (molscript -r). We have produced several protein cartoons in molscript and also using render. When we use render, we get the program to output the image as an rgb file which we then convert to molscript using image magick (as the raster manual suggests). However, the resolution of the image is always lost. The printed render image is jagged and rough compared with the molscript output. We would like the postscript detail but with the polished edge of render. The rgb image is really good so it mut have something to do with the conversion to postscript from rgb. Has any one found a way around this, or got any ideas? Thanks Mark ******************************************************** Mark Howard Protein NMR Spectroscopy | Dept. of Biochemistry | University of Cambridge || | Tennis Court Road | || | | Cambridge, UK. || | ||| | | CB2 1QW ____|||||___/\__||||||||___|_|_ Tel: (01223) 333662 Fax: (01223) 333661 E-mail: mjh2@mole.bio.cam.ac.uk ******************************************************** From owner-structural-nmr@net.bio.net Sun Apr 06 23:00:00 1997 Path: biosci!agate!howland.erols.net!news-peer.sprintlink.net!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeed.nacamar.de!fu-berlin.de!news-ber1.dfn.de!news-fra1.dfn.de!news-ge.switch.ch!serra.unipi.it!sirio.cineca.it!flash.iaca.unibo.it!mauro From: "M.A. Cremonini" Newsgroups: bionet.structural-nmr Subject: Re: Program for vector representation of the coherence evolution. Date: Mon, 7 Apr 1997 15:31:46 +0100 Organization: Cineca Lines: 30 Message-ID: References: <4nFLzoy00iWWIAn2BG@andrew.cmu.edu> Reply-To: "M.A. Cremonini" NNTP-Posting-Host: flash.iaca.unibo.it Mime-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII In-Reply-To: <4nFLzoy00iWWIAn2BG@andrew.cmu.edu> On Fri, 4 Apr 1997, Laura G Barrientos wrote: > Hello, > Does anyone know about a program that could simulate in real-time the > coherence pathway, illustrated by spins in the three dimensional plane, > when a specific pulse sequence (for 1D, 2D, or 3D) and phase cycling is > applied? > Thanks, Laura. > > Hi, take a look to Peter Lundberg's program list at: http://www.york.ac.uk/depts/chem/services/nmr/edusoft.html Maybe the program you're looking for is cited there. Bye, Mauro ============================================ Mauro Andrea Cremonini, PhD Institute of Agricultural Chemistry University - Bologna - Italy FAX:+39.51.243362 e-mail: m.a.cremonini@flash.iaca.unibo.it 73 de IK4QIX ============================================ From owner-structural-nmr@net.bio.net Mon Apr 07 23:00:00 1997 Path: biosci!agate!howland.erols.net!cam-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeed.nacamar.de!news.apfel.de!news-fra1.dfn.de!news-ge.switch.ch!news-zh.switch.ch!elna.ethz.ch!not-for-mail From: Reto Koradi Newsgroups: bionet.structural-nmr Subject: Re: Raster 3D Quality Date: Tue, 08 Apr 1997 14:10:56 +0200 Organization: Swiss Federal Institute of Technology (ETHZ) Lines: 18 Message-ID: <334A35D0.343D@mol.biol.ethz.ch> References: <5ibi2d$ags@news.ox.ac.uk> NNTP-Posting-Host: odin.ethz.ch Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01Gold (X11; I; SunOS 5.4 sun4d) Dennis Benjamin wrote: > While I can't answer your question about molscript, I'd like to point > out a molecular graphics program called MOLMOL. It is very powerful, > and you can output files to be rendered in POV-RAY (a freeware ray tracing > program) at any resolution you want. If you don't need advanced effects that only ray tracing can produce (shadows, reflections, etc.), MOLMOL can also output shaded images to PostScript directly. These are then not rastered, but true vector oriented files, so they will make use of the full printer resolution. When working with any kind of raster formats, I found that something like 200 dpi is a good tradeoff between quality and size. So that's around 2000x1500 pixels for an A4 size print. 200 dpi is also a good number because it evenly divides into 400 and 600 dpi, which are common resolutions for current color printers. -- Reto Koradi (kor@mol.biol.ethz.ch, http://www.mol.biol.ethz.ch/~kor) From owner-structural-nmr@net.bio.net Mon Apr 07 23:00:00 1997 Path: biosci!rutgers.rutgers.edu!gatech!csulb.edu!news.sgi.com!newsfeed.nacamar.de!fu-berlin.de!informatik.tu-muenchen.de!lrz-muenchen.de!not-for-mail From: Rainer Gratias Newsgroups: bionet.structural-nmr Subject: Re: Raster 3D Quality Date: Tue, 08 Apr 1997 08:26:03 +0200 Organization: TU Muenchen Lines: 30 Distribution: world Message-ID: <3349E4FB.41C6@artus.org.chemie.tu-muenchen.de> References: <5ibi2d$ags@news.ox.ac.uk> NNTP-Posting-Host: artus.org.chemie.tu-muenchen.de Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0 (X11; I; IRIX 6.2 IP22) Dennis Benjamin wrote: > > Mark J Howard (mjh2@MOLE.BIO.CAM.AC.UK) wrote: > > : Has any one found a way around this, or got any ideas? > > While I can't answer your question about molscript, I'd like to point > out a molecular graphics program called MOLMOL. It is very powerful, > and you can output files to be rendered in POV-RAY (a freeware ray tracing > program) at any resolution you want. It's a fantastic program, I'd > be very surprised if there was anything you could do in molscript that > you couldn't do in molmol. > > http://www.mol.biol.ethz.ch/wuthrich/software/molmol/ Can't agree more. Rainer Gratias. ********************************************************************** Technische Universitaet Muenchen Institut fuer Organische Chemie und Biochemie Lehrstuhl fuer Organische Chemie II Rainer Gratias Lichtenbergstr. 4 D-85747 Garching Tel : ++49 +89 289-13324 FAX : ++49 +89 289-13210 e-mail: rg@artus.org.chemie.tu-muenchen.de ********************************************************************** From owner-structural-nmr@net.bio.net Wed Apr 09 23:00:00 1997 Path: biosci!agate!howland.erols.net!ais.net!uunet!in1.uu.net!136.142.185.26!newsfeed.pitt.edu!bb3.andrew.cmu.edu!andrew.cmu.edu!lgb+ From: Laura G Barrientos Newsgroups: bionet.structural-nmr Subject: Folded peaks in 2D spectra. Date: Thu, 10 Apr 1997 10:06:57 -0400 Organization: Chemistry, Carnegie Mellon, Pittsburgh, PA Lines: 17 Message-ID: NNTP-Posting-Host: po8.andrew.cmu.edu Hi there, I have a question regarding the folding issue in a 2D NMR experiment. Let's consider the following HSQC experiment. In the w2 dimension, the 1H frequencies are observed and SW is high enough to cover all the frequencies due to all the protons from the protein. A bandpass filter is used to avoid the "while noise catastrophe". In the w1 dimension, 15N frequencies are observed and SW was selected to observe only the ones from the finger print region. From the transformed spectrum, it is clear that any 15N frequency outside the selected SW folded into the spectrum. At the same time, it is puzzling me why we don't seem to have any problem with the "white noise catastrophe" (infinite range of noise frequencies folding into the spectrum). Let's keep in mind that bandpass filters are not used in the indirect dimension. Your comments to this regard are a greatly appreciated. Laura. From owner-structural-nmr@net.bio.net Wed Apr 09 23:00:00 1997 Path: biosci!GATE.SINICA.EDU.TW!ccchuang From: ccchuang@GATE.SINICA.EDU.TW (Chyh-chong Chuang) Newsgroups: bionet.structural-nmr Subject: ROESY pulse sequence for DMX spectrometer Date: 10 Apr 1997 00:32:19 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 26 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Dear netters: I read a paper using modified ROESY pulse sequence to remove the offset dependence in ROESY cross peaks(Griesinger & Ernst, JMR, 1987), in which the spin-lock period bracketed by two 90 degree pulses. Could someone share such kind of pulse sequence with me (for DMX spectrometer)? Any suggest/help will be greatly appreciated. Thank you very much. ccchuang ============================================ Chyh-Chong Chuang Institude of Biological Chemistry, Academia Sinica,Taipei, Taiwan -------------------------------------------- Phone: 886-2-7858981 ext 7091 Fax: 886-2-7883473 E-Mail: ccchuang@gate.sinica.edu.tw ============================================ From owner-structural-nmr@net.bio.net Thu Apr 10 23:00:00 1997 Path: biosci!daresbury!uninett.no!nntp.uio.no!news.apfel.de!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!ais.net!uunet!in1.uu.net!128.6.21.17!dziuxsolim.rutgers.edu!pegasus.rutgers.edu!not-for-mail From: dhbao@pegasus.rutgers.edu Newsgroups: bionet.structural-nmr Subject: help, NOE substraction noise Date: 11 Apr 1997 11:16:07 -0400 Organization: Rutgers University Lines: 7 Message-ID: <5ilkjn$7il@pegasus.rutgers.edu> NNTP-Posting-Host: pegasus.rutgers.edu Summary: NOE substraction noise Keywords: NOE noise filter Dear neters, I am doning Trunc driven NOE exp of protein in 90% water using 11 echo to suppress water. I saturated a down field peak at 17ppm and the control at 6ppm further down field. The problem is, I always got some noise at 8.2-8.6 ppm. I try different saturation power, control frequence and temp., but still got noise. Could that problem cause by deutium filter? Since the filter on our 500 MHz system is BE77-7-8BB. The standard filter band width should be 3 to 4. I not sure if this is a problem. Thank you for your time, any help is appreciated. From owner-structural-nmr@net.bio.net Fri Apr 11 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!news.maxwell.syr.edu!cam-news-hub1.bbnplanet.com!news.bbnplanet.com!news-xfer.mccc.edu!news-xfer.netaxs.com!netnews.upenn.edu!dellwo From: dellwo@spruce.chem.upenn.edu (Martin J. Dellwo) Newsgroups: bionet.structural-nmr Subject: Re: Raster 3D Quality Date: 11 Apr 1997 16:32:59 GMT Organization: Department of Chemistry, University of Pennsylvania Lines: 94 Message-ID: <5ilp3r$guf@netnews.upenn.edu> References: Reply-To: dellwo@spruce.chem.upenn.edu NNTP-Posting-Host: spruce.chem.upenn.edu In article , Mark J Howard wrote: >...the polished edge of render. The rgb image is really good so it >mut have something to do with the conversion to postscript from rgb. No, as someone else responded, it has to do with screen resolution versus print resolution. Screen images are 72 dpi (dots per inch), whereas a good print resolution to aim for is 1-2x the capabilities of your printer. You may be happy with less resolution, but for publication quality I would aim for 600 dpi. In what follows, I did all of this on an SGI running 5.3. Here's what I did recently for making a 6"x6", 600 dpi image: For raster3d output from molscript, you can have the file 'header.r3d' in the current directory, or you can output and edit the intermediate raster3d file before sending it to render. I've included my copy below. The relevant lines are 2,3, and 4. Since the pixel mode is '3' (line 4), the 36x36 pixels/tile specified in line 3 is reduced on output to 24x24, and for 150 tiles (line 2) that's 150x24 pixels (=dots). Assuming 600dpi, that will give 6". The maximum number of tiles I believe is 192. Note that this will significantly extend the time it takes for molscript to do it's job, and the file will be quite large (5046 blocks in compressed (SGI-RLE) format for my case). If you try to edit this image under, say, 'imgworks', it will look huge on screen, but the print size will be scaled. If you print out of imgworks the print will be b&w, because the default print output makes that assumption (this may be different if you use Impressario for printing). To convert to postscript you can use the printer's tools directly: for the file render.rgb, /usr/lib/print/sgi2ps -C rgb render.rgb -O render.ps will create the file 'render.ps'. If your printer can accept binary output, and your printer is not on a serial port, you can send directly: /usr/lib/print/sgi2ps -B -C rgb render.rgb | lp -d See 'man sgi2ps' for more details. I recently figured out how to bring an SGI file into Adobe Photoshop (3.0) on a Macintosh: you must uncompress the image format (use the command 'verbatim', then bring it over as binary data. The non-compressed file is quite large: 3 channels x 3600 x 3600 bytes + 512 byte header, 75939 blocks in my example. In photoshop, read it in as 'raw' format (you have to check 'show all files' in the 'open' menu) , specify the dimensions of the image (3600 x 3600), and a head of 512 bytes. The dimensions can be gotten from 'imginfo' command on the SGI, it's tiles x pixels from render. Although imginfo tells me the format is 'interleaved', it wasn't as far as photoshop was concerned--I unchecked the 'interleaved' box. Photoshop read this with no problem, and I converted from an image size @ 72dpi to 6" x 6" @ 600 dpi using the 'Image>Image Size...' command and constraining both proportions and filesize. The background even comes out transparent (at least for 'white' in my raster3d header--don't know about using other background colors). Be sure and 'Save as...' photoshop format, which will recompress the data. I hope this answers your questions. All of this uses molscript v1.4 and raster3d v2.1 output plus standard SGI programs (or photoshop), gives beautiful results, and doesn't require you to know anything about MOLMOL, although I'm sure it's a very nice program. I've included my 'header.r3d' file below. -Marty -- Martin J. Dellwo (215) 898-4886 dellwo@spruce.chem.upenn.edu Department of Chemistry, University of Pennsylvania http://cypress.chem.upenn.edu/~dellwo/ -----------header.r3d-------------------------- Template file for MolScript v1.4 output to render file (Raster3D) 150 150 tiles in x,y; this gives 6" x 6" at 600dpi 36 36 pixels (x,y) per tile (24x150/600 = 6") 3 pixel mode: 3x3 virtual pixels -> 2x2 pixels 1 1 1 RGB background colour; white = 1 1 1 (clear for transparencies) F F = no shadows cast, T = shadows 25 Phong power 0.20 secondary light contribution 0.05 ambient light contribution 0.20 specular reflection component 4.0 eye position 1 1 1 main light source position 1 0 0 0 input coordinate, radius transformation 0 1 0 0 0 0 1 0 0 0 0 1 3 mixed objects * * * From owner-structural-nmr@net.bio.net Sun Apr 13 23:00:00 1997 Path: biosci!PHOENIX.PRINCETON.EDU!ipelczer From: ipelczer@PHOENIX.PRINCETON.EDU (Istvan Pelczer) Newsgroups: bionet.structural-nmr Subject: Re: Sources of 15N labelled amino acids Date: 14 Apr 1997 08:31:01 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 37 Sender: daemon@net.bio.net Distribution: world Message-ID: References: NNTP-Posting-Host: net.bio.net Cambridge Isotope Laboratories, Isotec, Martek Biosciences, Aldrich, Fluka,... and I am sure there are a couple more. Worth to check www, too. All the best, Istvan wwww,wwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwww Istvan Pelczer, Ph.D. Email: ipelczer@princeton.edu Senior NMR Spectroscopist Princeton University Department of Chemistry, Frick Lab., ph# (609) 258 2342 Washington Road fax# (609) 258 6746 Princeton, NJ 08544, USA On Mon, 14 Apr 1997, Tobin Sosnick wrote: > I am interested in synthesizing peptides with a couple of specific > 15N labeled amino acids. Could anybody recommend sources, commercial > otherwise? > > TIA, > Tobin > > ********************************************************************* > Tobin R. Sosnick, Ph.D > trsosnic@midway.uchicago.edu (773) 834-0657 (office) > Dept. of Biochemistry & Molecular Biology (773) 702-0439 (fax) > University of Chicago > 920 E. 58th Street > Chicago, Il 60637 > ******************************************************************** > ** "If it was easy, someone else would have done it by now." ** > ******************************************************************** > > From owner-structural-nmr@net.bio.net Sun Apr 13 23:00:00 1997 Newsgroups: bionet.structural-nmr Path: biosci!daresbury!uninett.no!hermod.uio.no!ifi.uio.no!hunter.premier.net!cyclic.gsl.net!news.gsl.net!howland.erols.net!vixen.cso.uiuc.edu!uchinews!news From: Tobin Sosnick Subject: Sources of 15N labelled amino acids X-Nntp-Posting-Host: lab-sosnick.uchicago.edu Message-ID: Sender: news@midway.uchicago.edu (News Administrator) Organization: University of Chicago -- Academic Computing Services Date: Mon, 14 Apr 1997 14:03:27 GMT Lines: 17 I am interested in synthesizing peptides with a couple of specific 15N labeled amino acids. Could anybody recommend sources, commercial otherwise? TIA, Tobin ********************************************************************* Tobin R. Sosnick, Ph.D trsosnic@midway.uchicago.edu (773) 834-0657 (office) Dept. of Biochemistry & Molecular Biology (773) 702-0439 (fax) University of Chicago 920 E. 58th Street Chicago, Il 60637 ******************************************************************** ** "If it was easy, someone else would have done it by now." ** ******************************************************************** From owner-structural-nmr@net.bio.net Sun Apr 13 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!newsfeed.nacamar.de!dispatch.news.demon.net!demon!gossinst.demon.co.uk!not-for-mail From: Greg Coumbarides Newsgroups: bionet.structural-nmr Subject: Re: Sources of 15N labelled amino acids Date: Mon, 14 Apr 1997 19:05:42 GMT Organization: Goss Scientific Ltd Message-ID: <861044742.15353.0@gossinst.demon.co.uk> References: NNTP-Posting-Host: gossinst.demon.co.uk X-NNTP-Posting-Host: gossinst.demon.co.uk X-Mailer: Mozilla 1.1 (Macintosh; I; 68K) MIME-Version: 1.0 To: trsosnic@midway.uchicago.edu X-URL: news:E8MsDr.IsD@midway.uchicago.edu Content-Transfer-Encoding: 7bit Content-Type: text/plain; charset=us-ascii Lines: 16 I recommend you try: Cambridge Isotope Laboratories 50 Frontage Road Andover MA 01810 Ph: (800) 322 1174 Fax(508) 749 2768 They offer good quality products Greg Coumbarides Goss Scientific Instruments Ltd 100 Vicarage Lane, Great Baddow, Essex, CM2 8JB, England Phone +44 1245 478441, Fax +44 1245 473272 From owner-structural-nmr@net.bio.net Thu Apr 17 23:00:00 1997 Path: biosci!NMR.VARIAN.COM!george.gray From: george.gray@NMR.VARIAN.COM (George Gray) Newsgroups: bionet.structural-nmr Subject: Biomolecular NMR Scientist Position in Japan Date: 18 Apr 1997 13:56:30 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 30 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Varian has an opening based in Tokyo, Japan for a Senior Applications Scientist who will be responsible for supporting our high field biomolecular customers, developing and/or implementing modern NMR experiments, interacting with our biomolecular NMR scientists in Varian sites around the world, and being a focal point in Japan for biomolecular applications activity. Excellent English communications and presentation skills are essential. A working knowledge of UNIX, modern biomolecular NMR techniques and troubleshooting skills are important. This will be a position with worldwide visibility and the scientist involved will be encouraged to contribute scientifically both internally within Varian with ideas of product development and applications effort, as well as externally in the form of attendance at scientific meetings, presenting papers, and conducting research. We require a Ph.D. in Chemistry or Physics or equivalent with 3-5 years of biomolecular NMR experience. Please send your resume to: Varian Associates 3120 Hansen Way, D-315/AS Palo Alto, CA 94304 or respond to resume@nmr.varian.com George A. Gray NMR Applications Lab Varian, Palo Alto From owner-structural-nmr@net.bio.net Fri Apr 18 23:00:00 1997 Path: biosci!daresbury!uninett.no!Oslo2.Norway.EU.net!Norway.EU.net!EU.net!howland.erols.net!feed1.news.erols.com!newsfeeds.sol.net!hammer.uoregon.edu!news.icm.edu.pl!uw.edu.pl!news.nask.pl!01-newsfeed.univie.ac.at!03-newsfeed.univie.ac.at!news.univie.ac.at!loop.mdy.univie.ac.at!hs From: hs@mdy.univie.ac.at (Hellfried Schreiber) Newsgroups: bionet.structural-nmr Subject: 2ns announcement - ICMSB97 Date: 18 Apr 1997 18:12:35 GMT Organization: Vienna University, Austria Lines: 252 Sender: hs@loop.mdy.univie.ac.at (Hellfried Schreiber) Message-ID: <5j8dij$1b08@www.univie.ac.at> NNTP-Posting-Host: loop.mdy.univie.ac.at ------------------- SECOND ANNOUNCEMENT ------------------- S E C O N D I N T E R N A T I O N A L C O N F E R E N C E O N M O L E C U L A R S T R U C T U R A L B I O L O Y >> I C M S B 97 << SEPTEMBER 10 - 14, 1997 VIENNA, AUSTRIA Organized by the Austrian Chemical Society Working Group Biophysical Chemistry Indroduction to the ICMSB'97 ++++++++++++++++++++++++++++ The first International Conference on Molecular Structural Biology (ICMSB) took place in Vienna in September 1995, and was very well received by all who took part, including over 200 participants from more than 20 countries wordwide. The organisers are pleased to announce the Second ICMSB, which will take place from the 10th to 14th September 1997, and will feature internationally renowned speakers. The conference, which will focus on topics covering a number of the most exciting areas in the field, will be opened by one of the pioneers of molecular structural bioloby, Dr.Max Perutz. The following four days of the conference will include sessions on Structure and Prediction, Macromolecular Interactions, Catalysis and Design, and Folding. Vienna - A Unique Conference Location +++++++++++++++++++++++++++++++++++++ The conference will again be located at the Bundeswirtschaftskammer in Vienna. The city is a particularly attractive location for a conference, with its combination of historical buildings, green parks, and modern architecture. Some of the most famous city sights include Schönbrunn Palace and the Hofburg, former homes of the Habsburgs, St. Stephans Cathedral, and the colourful Hundertwasser House. Also unique to Vienna is the Prater park, with its endless green avenues and its funfair, featuring the "Riesenrad" (ferris wheel). Of course, no trip to Vienna would be complete without a visit to one of the many traditional Viennese cafes, for a piece of the famous Sachertorte. Organising committee ++++++++++++++++++++ A.Kungl, P.Andrew, A.Schilk, A.Schrenk Scientific committee ++++++++++++++++++++ H.Tuppy, O.Steinhauser, A.Kungl, H.Schreiber In cooperation with Austrian Academy of Science Federal Ministry for Economic Affairs Federal Ministry of Labour, Health, and Social Affairs Chamber of Commerce __________________________________________ | | | S C I E N T I F I C P R O G R A M M E | | | | | ------------------------------------------ The four sessions fo the conference cover a wide range of topics and experimental methods, which will be presented in the form of plenary lectures, selected short oral communications, and posters. Plenary Lectures ++++++++++++++++ Wednesday, 10th: Honorary Lecture ================================= M.Perutz (MRC, Cambridge) Glutamine Repeats and Inherited Neurodegenerative Diseases Thursday 11th: Structure and Prediction ======================================= H.Michl (MPI, Fankfurt) Structure and Possible Mechanism of Action of the Cytochrome c Oxidase form Paracoccus denitrificans D.Moras (CNRS, Strasbourg) The Crystal Structure of Nuclear Receptors and Functional Correlations T.Richmond (ETH, Zuerich) X-Ray Structure of the Nucleosome Core Particle at 2.8A Resolution G.Rose (John Hopkins University) Simulation of Protein Folding using LINUS B.Rost (EMBL, Heidelberg) Learing from Evolution to Predict Protein Structure S.Benner (University of Florida) Natural History and the Physical Sciences: Predicting the Structure of Proteins M.Sippl (University of Salzburg) Moluclar Forces in Protein Folding and Prediction Friday 12th: Macromolecular Interactions ======================================== O.Jardetzky (Stanford University) Protein Dynamics, NMR and Protein Function A.Frankel (UCSF, San Francisco) Design and Evolution of RNA-binding Proteins T.Seitz (Yale University) Structural Diversity and Mechnistic Similarity in RNA and DNA Polymerase Families R.Rigler (Karolinska Inst., Stockholm) Fluoresence Correlation Spectroscopy, Detection and Selection of Single Molecules A.Watts (University of Oxford) Atomistic Resolution af Bound Ligands in Functionally Active, Membrane Receptors using Non-Crystallographic Methods Saturday 13th: Catalysis and Design =================================== W. van Gunsteren (ETH, Zuerich) Calculation of Free Energy and Binding Constants for Biomolecular Complexes A.Wlodawer (NCI, Frederick) Retroviral Integrases - the Last Frontier in Designing Drugs against Aids R.Goody (MPI, Dortmund) Problems and Perspectives in Designing Drugs Against AIDS M.Weir (Glaxo Wellcome, Stevenage) Role of Structural Biology in Drug Discovery K.Mueller (F.Hoffmann-La Roche, Basel) Combined Rational and Random Design Concepts in Drug Discovery M.Gruetter (Novartis, Basel) A Target Based Stragegy for Drug Discovery Sunday 14th, Folding ==================== R.Baldwin (Stanford University) Nature of the APomyoglobin Folding Pathway K.Dill (UCSF, San Francisco) Sightseeing along the Landscapes of Protein Folding C.Dobson (University of Oxford) Exploring the Structural Bases of Protein Folding P.Schuster (University of Vienna) RNA Structures beyond the One Sequence-One Structure Paradigm F.Hartl (HHMI, New York) Chaperone-Assisted Protein Folding Call for Posters ++++++++++++++++ Interested participants are invited to submit abstracts describing original work which has not been presented elsewhere. Abstracts should arrive no later than July 10th, 1997. Authors will be informed about the provisional acceptance ot the abstract by the end of July. The presentation of the abstracts as a poster will be confirmed, and included in the Book of Abstracts when one or more of the authors register for the conference. Contributors of outstanding abstracts will be chosen by the Scientific Committee to give a 15 minute oral presentation. Exhibition ++++++++++ An exhibition of instruments, accessories, software, literature and other items is planned. Companies interested in displaying their products are kindly requested to contact the conference secretariat. Registration Fees +++++++++++++++++ before August 1 after August 1 Regular Participant 5000 ATS 5600 ATS GOeCH Member 4000 ATS 4500 ATS Student 2500 ATS 3000 ATS Accomp. Person 500 ATS 600 ATS The registration fee includes the COnference Proceedings and participation in all scientific sessions, the welcome drink, lunch from Thursday to Sunday, coffee breaks, and the participation in the social programme. Accompanying people attend only the social proramme. Location ++++++++ Wirtschaftskammer Oesterreichs (Julius Raab Saal) Wiedner Hauptstrasse 63 A-1040 Vienna If your are interested in a folder of the second announcement including a registration form and the social program, please contact: Dr. Andreas Kungl Gesellschaft Oesterreichischer Chemiker AG Biophysikalische Chemie Nibelungengasse 11 A-1010 Wien, Austria Tel.: ++ 43 1 5874249 or ++ 43 1 5873980 FAX.: ++ 43 1 5878966 e-mail: biophys@goech.co.at Distribution: Followup-To: Organization: Univ. of Vienna, Inst. for Theoretical Chemistry Keywords: -- +-----------------------------------------------------------------------------+ | | | Hellfried Schreiber, Ph.D. | | | +---------------------------------------+-------------------------------------+ | | | | Institute for Theoretical Chemistry | | | Theoretical Biochemistry Group | Mail: hs@mdy.univie.ac.at | | Waehrigerstrasse 17 | Voice: +43 1 40480 - 618 | | A-1090 Wien, Austria, Europe | FAX: +43 1 4028525 | | | | +-----------------------------------------------------------------------------+ From owner-structural-nmr@net.bio.net Sat Apr 19 23:00:00 1997 Path: biosci!daresbury!uninett.no!news-feed.inet.tele.dk!newsfeed.nacamar.de!rill.news.pipex.net!pipex!tank.news.pipex.net!pipex!iafrica.com!not-for-mail From: "Rob Thompson" Newsgroups: ab.jobs,bionet.structural-nmr,misc.jobs.resumes,pa.general,pdaxs.jobs.engineering,pgh.jobs.offered,sci.engr.civil,us.jobs.offered,us.jobs.resumes Subject: Engineer : Job Needed !! Date: 20 Apr 1997 11:01:40 GMT Organization: UUNET Internet Africa Lines: 785 Message-ID: <01bc4d7a$2e42a640$9a611fc4@buddie> NNTP-Posting-Host: 196-31-97-154.iafrica.com X-Newsreader: Microsoft Internet News 4.70.1155 Xref: biosci bionet.structural-nmr:1872 misc.jobs.resumes:157476 sci.engr.civil:24441 Hi there I am a Civil Engineer degreed and trained in South Africa (registered with the SA Inst of Civ Eng). I would very much like to live and work in the USA in the medium to long term, and am looking for prospective employers who might find my experience and qualifications of interest. I have recently gained membership with the ASCE and hope to register as PE in one of the States on procurement of a job. Attached please find my resume in Word 6 format for your perusal. If you are able to assist, or are able to put me in touch with someone who can assist, please drop me a line at : rthomp@iafrica.com - I will be most grateful. Regards Rob Thompson begin 600 Res_rt01.doc MT,\1X*&Q&N$`````````````````````/@`#`/[_"0`&```````````````! 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M``!Q`0``BP$``)T!``">`0``GP$``+ !``"]`0``SP$``.$!``#J`0``ZP$` M`/P!``#]`0``" (``!4"```H`@``.P(``$L"``!<`@``;@(``&\"``"%`@`` M908``&8&``"7!P``F <``*H'``#4!P``U0<``-\'```$" ``!0@``!0*```5 M"@``TPH``!,+```="P``*PL``"P+```(#P``"@\``$H/``!+#P``50\``&4/ M``!F#P``\1$``/,1```3$@``%!(``!X2```J$@``*Q(``&\3``!Q$P``J!,` M`+(3``"[$P``O!,``-44``#6% ``\Q0```$5```"%0``$14``#85``!E%0`` M>A4``'L5``"-%0``LA4``-T5``#>%0``^Q4``! 6```:%@``*18``#(6```Y M%@``018``$P6``!S%@``EA8``*86``#-%@``(Q<``$@7``!)%P``4A<``%07 M``!O%P``3Q@``&H8``"<& ``X1@``.X8```E&0``?1D``,89```.&@````$^ M(U(!``%7(E(!``%7(M@```%7(M@```%7(M@```'Z!M@```'Z!M@```'Z!M@` M``'Z!M@```'Z!M@```'Z!M@```'Z!M@```'Z!M@```'Z!M@```'Z!M@```'Z M!M@```'5"-@```'5"-@```'5"-@```'5"-@```'5"-@```'5"-@```'5"-@` M``'5"-@```'5"-@```'5"-@```'5"-@```+.!M@```+.!M@```'.!M@```'. M!M@```'.!M@```'.!M@```'.!M@```'.!M@```'.!M@```$."=@```$."=@` M``$."=@```$."=@```$."=@```$."=@```$."=@```$."=@```$."=@```$. M"=@```$."=@```$^(]@```%>(E(!``I>(M@```%>(M@```->(M@```$^(]@` M``%7(E(!!/_Z!H\"``'Z!M@```%W&M\```%W&M@```%W&M@```=W&M@```%W M&M@```-W&M@`!/_Z!F<#``%W&M\```%W&M@```%W&M@```UW&M@```%W&M@` M!/_Z!F<#``'Z!M@```%W&M\```%W&M@```%W&M@```EW&M@```%W&M@`!/_Z M!K NNTP-Posting-Host: net.bio.net Dear Netters, Would someone be aware of conversion routine for NMRPipe-to-Felix or NMRView-to-Felix? Thanks, Istvan wwww,wwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwwww Istvan Pelczer, Ph.D. Email: ipelczer@princeton.edu Senior NMR Spectroscopist Princeton University Department of Chemistry, Frick Lab., ph# (609) 258 2342 Washington Road fax# (609) 258 6746 Princeton, NJ 08544, USA From owner-structural-nmr@net.bio.net Sun Apr 20 23:00:00 1997 Path: biosci!med.monash.edu.au!Jessie.Tong From: Jessie.Tong@med.monash.edu.au (JESSIE TONG) Newsgroups: bionet.structural-nmr Subject: Deletion Date: 20 Apr 1997 18:29:36 -0700 Organization: Faculty of Medicine, Monash Uni Lines: 11 Sender: daemon@net.bio.net Distribution: world Message-ID: <35EBD261D93@its-med.cc.monash.edu.au> NNTP-Posting-Host: net.bio.net Please delete Kerry.Higgins@med.monash.edu.au from your distribution list. Thank you. Jessie Tong Faculty Postmaster Faculty of Medicine Monash University Vic. Australia From owner-structural-nmr@net.bio.net Mon Apr 21 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!news.scripps.edu!obelix!weber From: weber@scripps.edu (Christoph Weber) Newsgroups: bionet.structural-nmr Subject: Re: conversion Date: 22 Apr 1997 21:08:06 GMT Organization: The Scripps Research Institute Lines: 17 Message-ID: <5jj9bm$3bb$2@hermes.scripps.edu> References: NNTP-Posting-Host: obelix.scripps.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit In article , ipelczer@PHOENIX.PRINCETON.EDU writes: > > Dear Netters, > Would someone be aware of conversion routine for NMRPipe-to-Felix or > NMRView-to-Felix? In the Felix 95.0 distribution you can find pipe2mat. Christoph -- | Dr. Christoph Weber Sen. Research Associate | Dept.of Molecular Biology, MB9 619-784-9869 (phone) | The Scripps Research Institute 619-784-9985 (FAX) | La Jolla CA 92037-1027 weber@scripps.edu | http://www.scripps.edu/~chazin/people/cw.html From owner-structural-nmr@net.bio.net Mon Apr 21 23:00:00 1997 Path: biosci!internet!biosci!not-for-mail From: biohelp (BIOSCI Administrator) Newsgroups: bionet.structural-nmr Subject: BIOSCI/bionet miniFAQ & Fundraiser Date: 22 Apr 1997 02:00:12 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 239 Sender: daemon@net.bio.net Distribution: world Message-ID: <199704220900.CAA01330@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. Sincerely, Dave Kristofferson BIOSCI/bionet Manager biosci-help@net.bio.net From owner-structural-nmr@net.bio.net Tue Apr 22 23:00:00 1997 Path: biosci!agate!newsgate.cuhk.edu.hk!news.glink.net.hk!uunet!in1.uu.net!151.99.250.2!server-b.cs.interbusiness.it!qualcuno.nettuno.it!sirio.cineca.it!flash.iaca.unibo.it!mauro From: "M.A. Cremonini" Newsgroups: bionet.structural-nmr Subject: Gemini (VARIAN) files Date: Wed, 23 Apr 1997 09:09:33 +0100 Organization: Cineca Lines: 21 Message-ID: Reply-To: "M.A. Cremonini" NNTP-Posting-Host: flash.iaca.unibo.it Mime-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII Hi everybody! I have some VARIAN GEMINI diskettes which I would like to read with a PC. I would like to extract the FIDs contained therein and read them with some processing software like GIFA or other shareware softwares for NMR. Did anybody ever experienced a similar problem? Any solutions around? Thank you ! Mauro ============================================ Mauro Andrea Cremonini, PhD Food Science and Technology Laboratory University of Bologna Via Ravennate 1020 - Cesena - Italy FAX:+39.547.382348 e-mail: m.a.cremonini@flash.iaca.unibo.it 73 de IK4QIX ============================================ From owner-structural-nmr@net.bio.net Wed Apr 23 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!howland.erols.net!rill.news.pipex.net!pipex!netcom.net.uk!nntpfeed.doc.ic.ac.uk!sunsite.doc.ic.ac.uk!lyra.csx.cam.ac.uk!news.ox.ac.uk!redfield From: redfield@bioch.ox.ac.uk (Christina Redfield) Newsgroups: bionet.structural-nmr Subject: NMR in Molecular Biology Conference, Aug. 23-28, 1997 Date: Thu, 24 Apr 1997 16:29:20 GMT Organization: Department of Biochemistry, Oxford University Lines: 68 Sender: redfield@bioch.ox.ac.uk Message-ID: <1997Apr24.162920.2591@nmrjbioch.ox.ac.uk> NNTP-Posting-Host: nmrj.ocms.ox.ac.uk Keywords: NMR, conference Originator: redfield@nmrj EUROPEAN RESEARCH CONFERENCES RESEARCH CONFERENCE ON: NMR IN MOLECULAR BIOLOGY: From Theory to Experiment: Opportunities for the Future Oxford, United Kingdom, August 23-28, 1997 Chairman: Prof. C.M. Dobson and Dr. C. Redfield (Oxford) Vice-Chairman: Prof. M. Rico (Madrid) !!!!!!!!!!!!!!!!!!!!! APPLICATION DEADLINE : 12MAY 1997 !!!!!!!!!!!!!!! Scope of the Meeting The first NMR spectrum of a protein was published in 1957. In the 40 intervening years NMR spectroscopy has developed into one of the most powerful tools for the study of the structure and dynamics of biological macromolecules. This meeting will be the third in the series ``NMR in Molecular Biology''. The lectures, discussions and posters will focus on important developments that have occurred in the last 2 years and the consequences of these for the future of the whole field of research. The meeting will be divided into five main topics: Methodologies, Structure and Function, Macromolecular Dynamics, Folding, and Complex Systems. Invited lectures, oral presentations by younger participants and poster sessions will focus on each of these areas. Invited Speakers Ad Bax, Bethesda, USA Iain Campbell, Oxford, GB Muriel Delepierre, Paris, F Jane Dyson, La Jolla, USA Stephen Fesik, Abbott Park, USA Julie Forman-Kay, Toronto, CAN Christian Griesinger, Frankfurt, D C. W. Hilbers Nijmegen, NL Robert Kaptein, Utrecht, NL Martin Karplus, Strasbourg, F Lewis Kay, Toronto, CAN Jean-Francois Lefevre, Strasbourg, F David Neuhaus, Cambridge, GB Hartmut Oschkinat, Berlin, D Flemming Poulsen, Copenhagen, DK Heinz Ruterjans, Frankfurt, D Luis Serrano, Heidelberg, D Lorna Smith, Oxford, GB Gabriele Varani, Cambridge, GB Peter Wright, La Jolla, USA Kurt Wuthrich Zurich, CH FOR FURTHER INFORMATION ----------------------- E-mail: euresco@esf.org WWW: http://www.esf.org/euresco Phone: +33 388 76 71 35 Fax: +33 388 36 69 87 Please quote conference reference number : 97-014 From owner-structural-nmr@net.bio.net Thu Apr 24 23:00:00 1997 Path: biosci!LARRY.BIOP.UMICH.EDU!pang From: pang@LARRY.BIOP.UMICH.EDU (Yuxi Pang) Newsgroups: bionet.structural-nmr Subject: Re: NMR book Date: 25 Apr 1997 14:19:16 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 43 Sender: daemon@net.bio.net Distribution: world Message-ID: References: <199704251733.MAA16027@oligo.utmb.edu> NNTP-Posting-Host: net.bio.net Hi, Dear You Xing Qu: If somenoe tell you where you can buy that book, could you give the information back to me, I also like buy that classicl book. Good luck! On 25 Apr 1997, You Xing Qu wrote: > > Dear netters, > > Does anyone know where I can buy the book " Principles of Nuclear > Magnetic Resonance in One and Two S Dimensions " by R.R. Ernst, > G. Bodenhausen, and A. Wokaun? Oxford University Press said the > book was permanently out of print. > > Thanks a lot, > > Youxing > > -------------------------------- YUXI PANG Biophysics Research Division The University of Michigan 930 N. University Ave. Ann Arbor, Michigan 48109-1055 Tel: 313-936-3851 (Lab) 313-973-2107 (Home) Fax: 313-973-2107 Email: pang@larry.biop.umich.edu -------------------------------- From owner-structural-nmr@net.bio.net Thu Apr 24 23:00:00 1997 Path: biosci!INDIGO1.BIOMOL.UCI.EDU!raman From: raman@INDIGO1.BIOMOL.UCI.EDU (CS Raman) Newsgroups: bionet.structural-nmr Subject: Re: NMR book Date: 25 Apr 1997 12:50:10 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 24 Sender: daemon@net.bio.net Distribution: world Message-ID: <199704251950.TAA00103@indigo2.biomol.uci.edu> References: <199704251733.MAA16027@oligo.utmb.edu> NNTP-Posting-Host: net.bio.net Youxing: {*} Does anyone know where I can buy the book " Principles of Nuclear {*} Magnetic Resonance in One and Two S Dimensions " by R.R. Ernst, {*} G. Bodenhausen, and A. Wokaun? Oxford University Press said the {*} book was permanently out of print. While the book is out-of-print (both hardcover & paperback) in the US, it is still available in the U.K. If you are unable to find a distributor I'll be happy to direct you to one. Let me know if you have difficulties. Cheers -raman ___________________________________________________________________ C.S.Raman Tel: (714) 824-4322 University of California Fax: (714) 824-8540 Dept. MB & B email: raman@indigo1.biomol.uci.edu 3205 Bio Sci II Irvine, CA 92697-3900 ------------------------------------------------------------------- In a time of drastic change it is the learners who inherit the future. The learned usually find themselves equipped to live in a world that no longer exists. --Eric Hoffer ___________________________________________________________________ From owner-structural-nmr@net.bio.net Thu Apr 24 23:00:00 1997 Path: biosci!OLIGO.UTMB.EDU!quyx From: quyx@OLIGO.UTMB.EDU (You Xing Qu) Newsgroups: bionet.structural-nmr Subject: NMR book Date: 25 Apr 1997 11:06:26 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 12 Sender: daemon@net.bio.net Distribution: world Message-ID: <199704251733.MAA16027@oligo.utmb.edu> NNTP-Posting-Host: net.bio.net Dear netters, Does anyone know where I can buy the book " Principles of Nuclear Magnetic Resonance in One and Two S Dimensions " by R.R. Ernst, G. Bodenhausen, and A. Wokaun? Oxford University Press said the book was permanently out of print. Thanks a lot, Youxing From owner-structural-nmr@net.bio.net Thu Apr 24 23:00:00 1997 Path: biosci!LARRY.BIOP.UMICH.EDU!pang From: pang@LARRY.BIOP.UMICH.EDU (Yuxi Pang) Newsgroups: bionet.structural-nmr Subject: Re: NMR book Date: 25 Apr 1997 14:23:20 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 54 Sender: daemon@net.bio.net Distribution: world Message-ID: References: <199704251950.TAA00103@indigo2.biomol.uci.edu> NNTP-Posting-Host: net.bio.net Hi, Dear C.S. Raman: I also like to buy that book, how can I cantact a distributor. Thanks advance. On 25 Apr 1997, CS Raman wrote: > Youxing: > > {*} Does anyone know where I can buy the book " Principles of Nuclear > {*} Magnetic Resonance in One and Two S Dimensions " by R.R. Ernst, > {*} G. Bodenhausen, and A. Wokaun? Oxford University Press said the > {*} book was permanently out of print. > > While the book is out-of-print (both hardcover & paperback) in the US, > it is still available in the U.K. If you are unable to find a distributor > I'll be happy to direct you to one. Let me know if you have difficulties. > > Cheers > -raman > ___________________________________________________________________ > C.S.Raman Tel: (714) 824-4322 > University of California Fax: (714) 824-8540 > Dept. MB & B email: raman@indigo1.biomol.uci.edu > 3205 Bio Sci II > Irvine, CA 92697-3900 > ------------------------------------------------------------------- > In a time of drastic change it is the learners who inherit the > future. The learned usually find themselves equipped to live > in a world that no longer exists. --Eric Hoffer > ___________________________________________________________________ > -------------------------------- YUXI PANG Biophysics Research Division The University of Michigan 930 N. University Ave. Ann Arbor, Michigan 48109-1055 Tel: 313-936-3851 (Lab) 313-973-2107 (Home) Fax: 313-973-2107 Email: pang@larry.biop.umich.edu -------------------------------- From owner-structural-nmr@net.bio.net Thu Apr 24 23:00:00 1997 Path: biosci!daresbury!lyra.csx.cam.ac.uk!news.ox.ac.uk!news From: Brian Marsden Newsgroups: bionet.biophysics,bionet.structural-nmr Subject: Iain Campbell group structures - now with added Java! Date: Fri, 25 Apr 1997 11:37:32 +0100 Organization: Biochemistry Dept. University of Oxford Lines: 18 Message-ID: <3360896C.41C6@bioch.ox.ac.uk> NNTP-Posting-Host: nmry.ocms.ox.ac.uk Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01 (X11; I; IRIX 5.3 IP22) Xref: biosci bionet.biophysics:2872 bionet.structural-nmr:1894 Due to the refurbishment of the Oxford Centre for Molecular Sciences (OCMS) web site, the URL for the structures solved by NMR in Iain Campbell's group has been changed. They can now be found via the IDC section of the OCMS website: http://www.ocms.ox.ac.uk/ or alternatively: http://www.ocms.ox.ac.uk/idc/structures/ A new feature is the addition of the WebMol Java applet to our site that allows most of the structures to be viewed and rotated on screen by a Java-capable browser. Any questions/comments e.t.c. please email Brian Marsden (marsden@bioch.ox.ac.uk). From owner-structural-nmr@net.bio.net Sun Apr 27 23:00:00 1997 Path: biosci!IRIS1.SB.FSU.EDU!logan From: logan@IRIS1.SB.FSU.EDU (Tim Logan) Newsgroups: bionet.structural-nmr Subject: (none) Date: 28 Apr 1997 05:41:18 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 12 Sender: daemon@net.bio.net Distribution: world Message-ID: <9704281242.AA00726@iris1.sb.fsu.edu> NNTP-Posting-Host: net.bio.net subscribe str-nmr Timothy Logan _______________________________ Timothy M. Logan Institute of Molecular Biophysics Florida State University Tallahassee, FL. 32306-3015 Phone: (904) 644-8979 Fax: (904) 561-1406 From owner-structural-nmr@net.bio.net Tue Apr 29 23:00:00 1997 Path: biosci!news.Stanford.EDU!su-news-hub1.bbnplanet.com!cam-news-feed2.bbnplanet.com!news.bbnplanet.com!dilbert.whoi.edu!news@whoi.edu From: David Remsen Newsgroups: bionet.structural-nmr,bionet.molec-model Subject: PACIFIC SYMPOSIUM ON BIOCOMPUTING Date: Wed, 30 Apr 1997 14:09:44 -0500 Organization: Marine Biological Laboratory Lines: 159 Message-ID: <336798EE.52F1@mbl.edu> Reply-To: dremsen@mbl.edu NNTP-Posting-Host: REMSEN.MBL.EDU Mime-Version: 1.0 X-Mailer: Mozilla 3.01 (Macintosh; I; PPC) Xref: biosci bionet.structural-nmr:1907 bionet.molec-model:1516 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit THE RELATIONSHIP BETWEEN PROTEIN STRUCTURE AND FUNCTION, OR HOW HAVE PROTEINS OVER TIME DIVERGED IN FUNCTION? A Seminar Track in the PACIFIC SYMPOSIUM ON BIOCOMPUTING January 5-8, 1998 Kapalua, Hawaii Overview Understanding the relationships between protein structure and function remains a primary focus in structural biology with important consequences in such diverse fields as molecular biology, genetics, biochemistry, protein engineering and bioinformatics. One approach to this problem is to study how nature has re-engineered proteins for new functions through evolutionary processes. This strategy has the potential to reveal fundamental characteristics of protein structures and the explicit manner in which they deliver their associated functions. To understand the structure-function paradigm, the most useful structural information comes the primary amino acid sequences and the tertiary structures. Several recent developments in analysis of the "protein universe" at the tertiary structural level have provided important criteria for understanding the range of family folds that exist and some of the evolutionary relationships associated with them. While the tertiary structure database is small, the sequence databases are large and now include the sequences of the entire genomes of several bacteria, an archaeon and a microbial eukaryote. Many additional genomes will be solved in the near future. With a great deal of protein sequence data at hand, we propose that the computational strategies required to address the "structure-function" problem are now sufficiently developed to support serious attempts to understand the fundamental relationships between protein structure and function. To focus on these issues, papers are solicited from scientists interested in computational approaches to the topics below or to related topics. In particular, we solicit papers that address the interface between automated structural analysis and biological insight. Possible Topics • What overall correlations between functional and structural classes of proteins are emerging from analysis of completed genome sequences? Do these correlations require alterations/extensions of our current definitions of function? • Tertiary structural relationships can reveal more distant relationships than can normally be identified through sequence analysis alone. How can these two types of information be integrated to extend the insight that can be obtained from either? Given the enormous disparity in the amount of information available at the sequence vs. the tertiary structural level, how can the large volume of sequence information be used to leverage the value that can be obtained from the much smaller volume of tertiary structural information? • What are the explicit correlations between protein structure and function? What is the driving force behind the evolution of protein structures to perform new functions? How much of a constraint does a requirement for substrate or ligand recognition impose on mechanisms of evolution? Or a requirement to perform a common chemical step? • What are the relationships between the specific function of a protein (i.e., chemical reaction, transport of small or large molecules, binding a small molecule ligand that triggers a downstream function) and its biological role in the cell or organism? Do these relationships correlate with structure in a systematic (or non-systematic) fashion? Submissions Full papers Full papers accepted for this session will be published in a hard-bound archival Proceedings. An electronic proceedings will also be available following the meeting (see http://www-smi.stanford.edu/people/altman/psb97/index.html for electronic proceedings of the papers published from the 1997 PSB meeting). All contributed papers are peer-reviewed by at least three referees. Accepted papers will be allocated up to 12 pages in the Proceedings. Several of these papers, as judged by merit and relevance to the session focus, will be selected for a 30-minute oral presentation to the full assembled conference. To be eligible for publication, full papers must be accompanied by a cover letter stating that it contains original unpublished results not currently under consideration elsewhere. PSB expects to be included in Indicus Medicus, Medline and other indexing services starting this year. Submit 5 copies of full papers to the central PSB address: PSB-98 c/o Section on Medical Informatics Stanford University Medical School, MSOB X215 Stanford, CA 94304-5479 USA We also welcome electronic submission. Format requirements can be found on the PSB web page (http://www.cgl.ucsf.edu/psb) or from Russ Altman (altman@smi.stanford.edu). Submit electronic papers directly to Dr. Altman. Format guidelines will be available on the PSB web page soon. Poster presentations One page abstracts for standard or computer-interactive poster presentations are also solicited. The one page abstracts should be submitted electronically either as ascii text or as a Microsoft Word file to Russ Altman (altman@smi.stanford.edu). Please contact Dr. Altman if it is not possible to submit your abstract in one of those two formats. Abstracts will be distributed at the meeting separately from the archival proceedings. Important Dates • Full paper submissions due: July 14, 1997 • Poster abstracts due: August 10, 1997 • Notification of paper acceptance: August 22, 1997 • Camera-ready copy due: September 22, 1997 • Conference: January 5 - 8, 1998 Further Information If you have questions about this symposium track or about submitting a manuscript, please contact the track organizers: Patricia Babbitt. Box 0446 Dept. of Pharm. Chem. University of California San Francisco, CA 94143-0446 Tel.: (+1-415) 476-3784 Fax: (+1-415) 476-0688 email: babbitt@cgl.ucsf.edu url: http://gazzetta.ckm.ucsf.edu/people/babbitt Monica Riley Marine Biological Laboratory 7 MBL St. Woods Hole, MA 02543 Tel.: (+1-508) 289-8612 Fax: (+1-508) 540-6902 email: mriley@mbl.edu url: http://mbl.edu/html/ecoli.html General Information about PSB-98 and Registration, Accommodation and Schedule Contact the PSB '98 - homepage http://www.cgl.ucsf.edu/psb or send email to the conference chair: hunter@nlm.nih.gov. From owner-structural-nmr@net.bio.net Wed Apr 30 23:00:00 1997 Path: biosci!PASTEUR.FR!murield From: murield@PASTEUR.FR (Muriel DELEPIERRE) Newsgroups: bionet.structural-nmr Subject: help Date: 1 May 1997 10:31:33 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 18 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net To the netters, We need some help with a virus introduced on our MacIntosh probably through attached mail. This affect only word 6 and stopped us to "register under" all the word icone of the corrupted files appears with an arrow. It seems to be linked with macros functions . How to get rid of this? is there an antivirus available? Any help will be gratefull Thanks a lot Muriel Delepierre Muriel DELEPIERRE tel (33) 1 45 68 88 71 Laboratoire de RMN Fax (33) 1 45 68 88 85 Institut Pasteur 75724 Paris cedex 15