From owner-structural-nmr@net.bio.net Thu Dec 01 22:00:00 1994 Path: biosci!MED.UNC.EDU!sheng From: sheng@MED.UNC.EDU (Sheng Zhong) Newsgroups: bionet.structural-nmr Subject: MacX Date: 2 Dec 1994 14:41:48 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 24 Sender: daemon@net.bio.net Distribution: world Message-ID: <9412022238.AA15648@hasty.med.unc.edu> NNTP-Posting-Host: net.bio.net Hi, Thanks everyone for the help. Up to now, I can run some graphic programs installed in indigo2 using macx. When I tried to run felix, however, I got: segmentation fault No can I run the insightII. We have version felix2.3 with X-remote license. Although debug is a part of our every day job sometimes it will make one crasy. Does any one know what is the problem, or has an advise? To whom trying to get the information that I got. I'll write the summary after I get the felix running. Dr. Sheng Zhong Dept of Biochem & Biophys UNC at Chapel Hill sheng@med.unc.edu From owner-structural-nmr@net.bio.net Thu Dec 01 22:00:00 1994 Path: biosci!galaxy.ucr.edu!library.ucla.edu!agate!news.Stanford.EDU!morrow.stanford.edu!camis.Stanford.EDU!holbrook From: holbrook@camis.Stanford.EDU (Robin Holbrook) Newsgroups: bionet.structural-nmr,sci.techniques.mag-resonance Subject: Advanced NMR Course, May 1995 Date: 2 Dec 1994 17:07:02 GMT Organization: Center for Advanced Medical Informatics at Stanford Lines: 29 Distribution: world Message-ID: <3bnk7m$fcs@morrow.stanford.edu> NNTP-Posting-Host: camis.stanford.edu Xref: biosci bionet.structural-nmr:315 sci.techniques.mag-resonance:504 International School of Biological Magnetic Resonance, 2nd Course: "Dynamics & the Problem of Recognition in Biological Macromolecules" May 19-30, 1995 Ettore Majorana Centre for Scientific Culture, Erice, Sicily, Italy An advanced graduate course devoted to the analysis of the dynamic behavior of biological macromolecules by nuclear magnetic resonance. 10 days of lectures, workshops and tutorials w/~20 lecturers - attendance limited to ~75 students. Sponsored by FEBS, NATO and the sponsors of the Ettore Majorana Centre. Registration including full room and board during course: $1,000 US. Some partial scholarships available. For information and/or registration contact either: holbrook@camis.stanford.edu (Ms. Robin Holbrook, Course Administrative Assistant) or the Directors: Dr. Oleg Jardetzky (Email: jardetzky@camis.stanford.edu Fax: 415/723-2253) or Dr. Jean-Francois Lefevre (Email: lefevre@bali.u-strasbg.fr Fax: +33/88 65 53 43) From owner-structural-nmr@net.bio.net Thu Dec 01 22:00:00 1994 Path: biosci!NMR.UOREGON.EDU!STRAIN From: STRAIN@NMR.UOREGON.EDU (MIKE STRAIN) Newsgroups: bionet.structural-nmr Subject: Re: run Felix-X and VnmrX remotely on PCs and MACs Date: 2 Dec 1994 11:38:55 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 20 Sender: daemon@net.bio.net Distribution: world Message-ID: <941202122421.2080052f@NMR.UOREGON.EDU> NNTP-Posting-Host: net.bio.net We also use Linux running on our 486 machines for displaying Felix-X and lots of other X applications running on our SGI machines. We also use a PC running Linux to operate the auxilliary f4 and f5 frequency channels on our Omega-500 spectrometer. Linux is available on CDROMS from several sources. The most current version is available via anonymous FTP from tsx-11.mit.edu or sunsite.unc.edu. We use the "Slackware" distribution. We have never found a satifactory X server for the Macintosh. Has anyone else? ----------------------------------------------------------------------- Michael Strain strain@nmr.uoregon.edu Institute of Molecular Biology University of Oregon voice: 503-346-4036 Eugene, OR 97403 FAX: 503-346-4854 ----------------------------------------------------------------------- From owner-structural-nmr@net.bio.net Thu Dec 01 22:00:00 1994 Path: biosci!EMRYCC.CC.EMORY.EDU!chemkak From: chemkak@EMRYCC.CC.EMORY.EDU ("KELLY A. KEATING") Newsgroups: bionet.structural-nmr Subject: X-Felix on a Mac Date: 2 Dec 1994 15:14:36 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 51 Sender: daemon@net.bio.net Distribution: world Message-ID: <9412022314.AA18114@emoryu1.cc.emory.edu> NNTP-Posting-Host: net.bio.net We use all our MacIntoshes as X displays for Felix successfully, using the software MaxX. A couple of years ago I believe MacX sold for about $200. All of our Macs and SGIs are of course connected over an ethernet, thus MacX allows us also to use the Mac as an X terminal for workstations. The trickiest part about getting Felix to display thru MacX is getting the settings in the MacX setup correct. Once you have installed MacX on your MacIntosh, start it up, and under Remote choose Edit Command. The command line you enter must be: /usr/bin/X11/xterm -ls -title "@host xterm" -sb -display "@display" where I've used the @ symbol here in place of the R-in-a-circle symbol (the trademark symbol---I don't remember how to make it on the Mac). Then, Command Name can just be the user's login name for the SGI. Display MUST be (2)Color Rootless Output Save For Host, add your SGI's hostname to the list and choose it. For Method, we use MacTCP Tool, already installed on our Mac. This works well for us. I know that there are variations of the command line above that starts with /usr/bin...... becasue once I had to work with a Mac expert to get it to work on someone else's Mac, and I know we ended up with soemthing slightly different from above. Also that particular time we kept running into out-of-memory errors from the Mac, and all she then did was increase the Mac's virtual memory and everything was fine. There is a more complete writeup of how to do this in my old Biosym notebook from when I was still at Biosym, so if you have a Customer Support contract with Biosym, simply send them email at rcenter@biosym.com and request the instructions for doing this--the person in the Felix support job now will know what to send you. Kelly Keating Dept. of Chemistry Emory University Atlanta, GA 30322 From owner-structural-nmr@net.bio.net Mon Dec 05 22:00:00 1994 Path: biosci!bloom-beacon.mit.edu!spool.mu.edu!howland.reston.ans.net!pipex!uknet!daresbury!not-for-mail From: Florence Lebreton Newsgroups: bionet.structural-nmr Subject: PAP Date: 6 Dec 1994 13:45:25 -0000 Lines: 18 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <3c1ptl$qbc@mserv1.dl.ac.uk> Original-To: str-nmr@dl.ac.uk Dear Netters I am currently looking for a software which should be called PAP : a protein analysis package (Callahan et al., 1990, J. Appl. Cryst. 23, 434-436). Could you please tell me where I could find it ? Thanks Florence Lebreton Laboratoire de RMN Institut Pasteur 28 rue du Dr. Roux 75015 Paris France tel : (011331) 40 61 30 87 fax : (011331) 45 68 88 85 From owner-structural-nmr@net.bio.net Mon Dec 05 22:00:00 1994 Path: biosci!MED.UNC.EDU!sheng From: sheng@MED.UNC.EDU (Sheng Zhong) Newsgroups: bionet.structural-nmr Subject: macx Date: 6 Dec 1994 13:10:13 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 48 Sender: daemon@net.bio.net Distribution: world Message-ID: <9412062110.AA06783@hasty.med.unc.edu> NNTP-Posting-Host: net.bio.net Hi, Here is my summary: How to use Macx to run Felix2.3 Don't use it! (correct me if I am wrong.) It looks like macx have given people lot of pain when they tried to run felix version 2.3 or up. It seems to me a program called Exodus ($148 with educational discount) may be better and is much easier to configure according to the e-mails I received. I got macx from Mosaic (nice network program). If one wants run X- on PC Linux is available via anonymous FTP from tsx-11.mit.edu or sunsite.unc.edu. For those people have not been able to get graphics from macx here is a simple solution. 1, Open macx and forget it. 2, Open NCSA-telnet and connect telnet to your network (remote workstation). 3a, After telnet connect to your SGI through network. type: 'winterm' or 'xwsh' or ... whatever x-window you like. now you can run graphic program within these windows 3b, After connection to the network just type graphic program name such as xv (xview program) Good luck Dr. Sheng Zhong Dept of Biochem & Biophys UNC at Chaple Hill sheng@med.unc.edu From owner-structural-nmr@net.bio.net Tue Dec 06 22:00:00 1994 Path: biosci!ggr.co.uk!rhf23484 From: rhf23484@ggr.co.uk (Dr R H Fogh) Newsgroups: bionet.structural-nmr Subject: H/D exchange of His 2-CH in proteins. Date: 7 Dec 1994 01:34:46 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 14 Sender: daemon@net.bio.net Distribution: world Message-ID: <20954.199412070925@mailhub.ggr.co.uk> NNTP-Posting-Host: net.bio.net Dear netters, We came across a problem with our His H2 aromatic CH protons in a protein we are looking at. After 4-5 days at 35 deg and pH 7.5 in D2O, about half the intensity of these resonances had gone. Almost all the NH protons had exchanged after 6-8 hours at 25-45 at the beginning. This phenomenon is new to me, but then I have always done my NMR around pH 5 before. Is it possible / likely that you get an exchange with solvent of His H2 protons under these conditions? Or if not, has anybody got an alternative explanation? Thanks for helping out. rhf23484@ggr.co.uk (Rasmus Fogh, Glaxo, Verona). From owner-structural-nmr@net.bio.net Tue Dec 06 22:00:00 1994 Path: biosci!ERE.UMontreal.CA!phanviem From: phanviem@ERE.UMontreal.CA (Phan Viet Minh Tan) Newsgroups: bionet.structural-nmr Subject: (none) Date: 7 Dec 1994 04:06:23 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 11 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Subscribe Minh Tan Phan viet Dept. Chem., Univ. Montreal PO Box 6128, Stn Centreville Montreal, Que., Canada H3C 3J7 Tel : (514) 343-5857 Fax : (514) 343-5718 Email: phanviem@ere.umontreal.ca From owner-structural-nmr@net.bio.net Wed Dec 07 22:00:00 1994 Path: biosci!CHARLY.MONSANTO.COM!crjone From: crjone@CHARLY.MONSANTO.COM (Claude R. Jones) Newsgroups: bionet.structural-nmr Subject: PFG Amplifier Question Date: 8 Dec 1994 12:28:15 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 34 Sender: daemon@net.bio.net Distribution: world Message-ID: <9412082021.AA17735@charly.monsanto.com> NNTP-Posting-Host: net.bio.net Hello: I am trying to decide between the 10 amp and 20 amp versions of the Highland DC amplifier for high resolution PFG experiments. The performance characteristics seem to be the same except for one point - the DC current step size. As I understand it with a 10 amp amplifier and a 10 amp probe the step size would be 10amp/32768 whereas with a 20 amp amplifier and a 10 amp probe the step size would be 10amp/16384. With the 20 amp version the current step is twice as coarse. I would appreciate hearing from anyone who has used or thought about very fine control of the current step size. Is this difference in current step size an important issue? What experiments would show a real benefit from a 10amps/32768 current step size versus the coarser step size? I want to be sure the amplifier will allow us to do all of the high resolution PFG experiments now but I would like to keep the door open for higher gradient strength work in the future. Thanks in Advance Claude R. Jones From owner-structural-nmr@net.bio.net Thu Dec 08 22:00:00 1994 Path: biosci!NODDY.CM.UTEXAS.EDU!jarle From: jarle@NODDY.CM.UTEXAS.EDU (Jarle Lillemoen) Newsgroups: bionet.structural-nmr Subject: (none) Date: 9 Dec 1994 09:06:50 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 2 Sender: daemon@net.bio.net Distribution: world Message-ID: <9412091706.AA14492@noddy.cm.utexas.edu> NNTP-Posting-Host: net.bio.net subscribe From owner-structural-nmr@net.bio.net Thu Dec 08 22:00:00 1994 Path: biosci!NODDY.CM.UTEXAS.EDU!jarle From: jarle@NODDY.CM.UTEXAS.EDU (Jarle Lillemoen) Newsgroups: bionet.structural-nmr Subject: (none) Date: 9 Dec 1994 09:05:21 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 2 Sender: daemon@net.bio.net Distribution: world Message-ID: <9412091705.AA14489@noddy.cm.utexas.edu> NNTP-Posting-Host: net.bio.net subscribe From owner-structural-nmr@net.bio.net Fri Dec 09 22:00:00 1994 Path: biosci!bloom-beacon.mit.edu!uhog.mit.edu!sgiblab!swrinde!howland.reston.ans.net!vixen.cso.uiuc.edu!newsrelay.iastate.edu!news.iastate.edu!kintanar From: kintanar@iastate.edu (Agustin Kintanar) Newsgroups: bionet.structural-nmr Subject: Re: H/D exchange of His 2-CH in proteins. Date: 10 Dec 1994 18:37:26 GMT Organization: Iowa State University, Ames, Iowa (USA) Lines: 30 Distribution: world Message-ID: <3ccsh6$66h@news.iastate.edu> References: <20954.199412070925@mailhub.ggr.co.uk> NNTP-Posting-Host: pv0a0b.vincent.iastate.edu Originator: kintanar@pv0a0b.vincent.iastate.edu In article <20954.199412070925@mailhub.ggr.co.uk>, rhf23484@ggr.co.uk (Dr R H Fogh) writes: |> Dear netters, |> We came across a problem with our His H2 aromatic CH protons in a |> protein we are looking at. After 4-5 days at 35 deg and pH 7.5 in D2O, |> about half the intensity of these resonances had gone. Almost all the |> NH protons had exchanged after 6-8 hours at 25-45 at the beginning. |> This phenomenon is new to me, but then I have always done my NMR around |> pH 5 before. |> Is it possible / likely that you get an exchange with solvent of His H2 |> protons under these conditions? Or if not, has anybody got an |> alternative explanation? |> |> Thanks for helping out. |> |> rhf23484@ggr.co.uk (Rasmus Fogh, Glaxo, Verona). Yes, it is likely you are getting exchange. This phenomenon has been seen and characterized before. You may want to check out the following references: Ohe et al. (1974) J. Biochem. (Tokyo) 75, 1197-1200 Cass et al. (1977) Biochem. J. (1977) 165, 587-589 Good Luck. Agustin Kintanar Dept. of Biochemistry and Biophysics Iowa State University From owner-structural-nmr@net.bio.net Sat Dec 10 22:00:00 1994 Path: biosci!MUWAYF.UNIMELB.EDU.AU!kinetics_group From: kinetics_group@MUWAYF.UNIMELB.EDU.AU (Kinetics Group) Newsgroups: bionet.structural-nmr Subject: John J. Fitzgerald Date: 11 Dec 1994 14:34:06 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 12 Sender: daemon@net.bio.net Distribution: world Message-ID: <01HKJUWWEQEQ005N3P@muwayb.ucs.unimelb.edu.au> NNTP-Posting-Host: net.bio.net Subject: Time: 9:18 AM OFFICE MEMO John J. Fitzgerald Date: 12/12/94 Would anyone have the e-mail address of Prof. John J. Fitzgerald (formerly of South Dakota State Uni) , the author of numerous Al-27 publications ? Thanks in advance Julian Salerno Chemistry Uni. Melbourne AUSTRALIA From owner-structural-nmr@net.bio.net Tue Dec 13 22:00:00 1994 Path: biosci!BTURN.MED.YALE.EDU!yuxin From: yuxin@BTURN.MED.YALE.EDU (Yuxin Hua) Newsgroups: bionet.structural-nmr Subject: Pulse Simulation Program Date: 14 Dec 1994 08:53:45 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 8 Sender: daemon@net.bio.net Distribution: world Message-ID: <9412141700.AA10497@bturn.med.yale.edu> NNTP-Posting-Host: net.bio.net Does anyone know where I can download a pulse simulation program for sun, SGI or PCs? Any help is greatly appreciated. Yuxin Hua yuxin@bturn.med.yale.edu From owner-structural-nmr@net.bio.net Thu Dec 15 22:00:00 1994 Path: biosci!ggr.co.uk!rhf23484 From: rhf23484@ggr.co.uk (Dr R H Fogh) Newsgroups: bionet.structural-nmr Subject: H/D exchange in His - RESUME Date: 16 Dec 1994 05:04:29 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 17 Sender: daemon@net.bio.net Distribution: world Message-ID: <19175.199412161255@mailhub.ggr.co.uk> NNTP-Posting-Host: net.bio.net Dear Netters, Lots of answers on the H/D exchange of H2 in the His aromatic ring. The process is real, base-catalysed, works on the non-protonated form, and seems to be well known. References are : Ohe et al., (1974) J. Biochem (Tokyo) 75, 1197-1200 Cass et al. (1977) Biochem J. 165, 587-589 John Markley,(1975) Acc. Chem. Res. pp. 70-80 Bradbury et al. ,(1980) JCS Perkin II, p. 693 Vaughan et al., (1970) J. Org Chem 25, p1141. Kimura et al., (1979) Imt. J. Pept Prot Res. 14, pp472-478. Kimura et al., (1979) J. Biochem., 86, pp. 301-310 Matsuo et al., (1972) J. Bioch. 72, pp. 1057-1060. Thanks to Agustin Kintanar, Muriel Delepierre, L. McIntosh, Ritsu Kondo, and many others. From owner-structural-nmr@net.bio.net Thu Dec 15 22:00:00 1994 Path: biosci!rutgers!gatech!howland.reston.ans.net!usc!news.cerf.net!ccnet.com!ccnet.com!not-for-mail From: jbrookes@ccnet.com (John Brookes) Newsgroups: bionet.structural-nmr,bionet.xtallography Subject: For Sale: HP MS Engine Date: 14 Dec 1994 11:55:49 -0800 Organization: CCnet Communications (510-988-7140 guest) Lines: 37 Message-ID: <3cnik5$np1@ccnet.ccnet.com> NNTP-Posting-Host: ccnet X-Newsreader: TIN [version 1.2 PL2] Xref: biosci bionet.structural-nmr:332 bionet.xtallography:1390 HP MS Engine 5989-A with 59940A HP Unix ChemStation model 345C+ workstation with hi-res color display. Options built-in: Optical DAT drive Laserjet III printer Chemistry options installed: negative ion detection extended mass range 10-2000 amu direct insertion probe thermospray LC/MS butterfly isolation valve mounted on diffusion pumps spare parts, tools, desk, work table, chiller, diaphragm vacuum system New cost about $200,000 Serious offers above $90,000 are solicited. Please contact John Brookes via email or 1-510-428-0700. Emeryville Analytical Equipment Co. HP serice contract available. Installation available. From owner-structural-nmr@net.bio.net Thu Dec 15 22:00:00 1994 Path: biosci!agate!howland.reston.ans.net!news.sprintlink.net!sundog.tiac.net!cil.tiac.net!lynneb From: lynneb@isotope.com (Lynne S. Batchelder) Newsgroups: bionet.structural-nmr Subject: CIL on the net Date: Fri, 16 Dec 1994 10:10:16 Organization: Cambridge Isotope Laboratories Lines: 11 Message-ID: NNTP-Posting-Host: cil.tiac.net X-Newsreader: Trumpet for Windows [Version 1.0 Rev A] I wanted to introduce myself to the newsgroup. We just got connected to the Internet here at Cambridge Isotope Labs and we are interested in applications of stable isotopes to biological NMR. I don't have any questions right now but I'm learning a lot from reading the postings here. lynneb@isotope.com Lynne Batchelder Technical Services Manager Cambridge Isotope Labs 508 749 8000 508 749 2768 (FAX) From owner-structural-nmr@net.bio.net Sun Dec 18 22:00:00 1994 Path: biosci!agate!howland.reston.ans.net!news.sprintlink.net!pipex!uunet!news.iij.ad.jp!wnoc-tyo-news!wnoc-sfc-news!nscnews!yilnws!lab3.yamaha!hamamatsu-pc!niq0!nfeed.gw.nagoya-u.ac.jp!news.cc.nagoya-u.ac.jp!d43162a From: d43162a@nucc.cc.nagoya-u.ac.jp (Toshiya Endo) Newsgroups: bionet.structural-nmr Subject: Re: H/D exchange of His 2-CH in proteins. Followup-To: bionet.structural-nmr Date: 19 Dec 1994 01:07:09 GMT Organization: Faculty of Science, Nagoya University Lines: 28 Distribution: world Message-ID: <3d2mbt$9ok@news.cc.nagoya-u.ac.jp> References: <20954.199412070925@mailhub.ggr.co.uk> NNTP-Posting-Host: 133.6.54.68 X-Useragent: NewsAgent v1.482 In article <20954.199412070925@mailhub.ggr.co.uk>, rhf23484@ggr.co.uk (Dr R H Fogh) writes: > > Dear netters, > We came across a problem with our His H2 aromatic CH protons in a > protein we are looking at. After 4-5 days at 35 deg and pH 7.5 in D2O, > about half the intensity of these resonances had gone. Almost all the > NH protons had exchanged after 6-8 hours at 25-45 at the beginning. > This phenomenon is new to me, but then I have always done my NMR around > pH 5 before. > Is it possible / likely that you get an exchange with solvent of His H2 > protons under these conditions? Or if not, has anybody got an > alternative explanation? I was working on this phenomenon some time ago and wrote a paper which you may be interested in: Endo et al., (1983) Bull. Chem. Soc. Jpn. 56, 667-670. It is a base-catalyzed reaction and the exchange occurs virtually only from the deprotonated form of His. The exchange is sensitive to charges in the proximity of the imidazole ring as well as the pKa of the imidazole ring itself. Toshiya Endo Department of Chemistry, Faculty of Science Nagoya University, Chikusa-ku, Nagoya 464-01, Japan e-mail: d43162a@nucc.cc.nagoya-u.ac.jp (Toshiya Endo) From owner-structural-nmr@net.bio.net Wed Dec 21 22:00:00 1994 Path: biosci!daresbury!not-for-mail From: thep@risc1.lrm.fi.cnr.it (Pornthep Sompornpisut) Newsgroups: bionet.structural-nmr Subject: deposit the pdb structures Date: 22 Dec 1994 14:33:44 -0000 Lines: 23 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <3dc2o8$fr1@mserv1.dl.ac.uk> Original-To: str-nmr@dl.ac.uk Dear str-nmr researchers Please excuse me if this message's bother you. Recently, we've done 3D-protien structures through NMR. We'd like to deposit the structures in Protein Data Bank. We've looked the pdb format but there're several thing to understand. I'll be appreciated if anyone could suggest us what we have to do correctly so that we won't loose the time. Our questions below are what we'd like to know firstly. - Whom should we contact with (via e-mail)? - Where do we have to deposit our structures? It's pdb.pdb.bnl.gov, isn't it? - Are there any softwares from ftp sites which can manipulate the pdb format? (We have the coordinate files which are as same as pdb format. But it seems to us that it needs to decribe more detail, for exmaple secondary structure.) Looking forward to seeing any suggestions. Merry Chrismas Pornthep From owner-structural-nmr@net.bio.net Wed Dec 21 22:00:00 1994 Path: biosci!daresbury!not-for-mail From: Newsgroups: bionet.structural-nmr Subject: H-1 shifts of complex-type carbohydrates Date: 22 Dec 1994 19:07:30 -0000 Lines: 22 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <3dcipi$an@mserv1.dl.ac.uk> Original-To: str-nmr@dl.ac.uk Dear Netters: This is my first posting to this news group and I have a question about the chemical shifts of the H-1 atoms in complex-type carbohydrates. I am especially interested in the question if there is a difference to be expected in the ppm values of the H-1 atoms of the terminal Gal residues of complex type carbohydrates if these would be bound beta-1,3 instead of the usual beta-1,4 linkage and how big this difference would be? As far as I have figured out from literature (e.g. Vliegenthart et al.) the typical values for H-1 of the terminal Gal, for the N-acetyllactosamine type, are at about 4.47 ppm, but I have not found yet any typical values for beta-1,3 linkages of the Gal residue to the preceding GlcNAc residue. Does anybody know where to look up some details about this problem or has anybody experience with these two complex-type structures? C. Frosch Internet: frosch@mzdmza.zdv.uni-mainz.de From owner-structural-nmr@net.bio.net Thu Dec 22 22:00:00 1994 Path: biosci!agate!howland.reston.ans.net!pipex!sunic!ugle.unit.no!marvin!sbp From: sbp@marvin.mr.sintef.no (Steffen Petersen) Newsgroups: bionet.structural-nmr Subject: Carbohydrate Bioengineering Meeting Date: 23 Dec 94 10:31:15 GMT Organization: University of Trondheim, Norway Lines: 238 Message-ID: NNTP-Posting-Host: marvin.mr.sintef.no Summary: Meeting on carbohydrates and carbohydrate active enzymes Keywords: carbohydrate,protein,enzyme 2ND ANNOUNCEMENT CARBOHYDRATE BIOENGINEERING April 23-26, 1995 Elsinore, Denmark Sponsors European Commission DGXII, European Congress of Biotechnology 5, Novo Nordisk A/S, Denmark. Nordic Fund for Technology and Industrial Development It is a pleasure for us to invite you to participate in the Carbohydrate Bioengineering Meeting scheduled for April 23-26, 1995, at the LO-School in Elsinore, Denmark. The meeting is also planned to be the first annual meeting for the EC Biotech Carbohydrate Active Enzyme Projects. Over the last decade we have witnessed a virtual explosion in our knowledge about both the function and structure of carbohydrates as well as the proteins they are interacting with. We are convinced that it is both a timely and relevant activity to provide an international forum, where we can discuss the latest research results with a particular emphasis on industrial and medical implications. It is becoming increasingly clear that carbohydrates and derivatives thereof have important roles in all biological systems. Many processes involving molecular recognition are either facilitated or modulated by carbohydrates. Concurrent with the revolution in microbiological techniques, we have available a host of new promising or significantly improved existing techniques for obtaining 3D structur al information with high relevance for developing a detailed molecular understanding of the often complex interaction between carbohydrates and the enzymes or proteins they interact with. The Carbohydrate Bioengineering Meeting will aim at providing a forum where some of the foremost researchers in the area will present their latest results obtained and selected participants will be invited to give oral as well as poster presentations. We aim at providing a stimulating and open scientific atmosphere for both the established professionals in industry and academia as well as for students. Pending sponsorship we will try to offer reduced rates for a limited number of students. The Organizing Committee Sven Pedersen, Novo Nordisk, Denmark Birte Svensson, Carlsberg Laboratory, Denmark Steffen B. Petersen, SINTEF UNIMED, MR-Center, Norway Scientific Advisory Board R. Dwek, UK - B. Henrissat, F K. Bock, DK - J. Dordick, US R. Haser, F - O. Smidsr›d, N T. Feizi, UK Conference Secretariat: Mona K. Eidem SINTEF UNIMED, MR-Center N-7034 Trondheim, Norway Phone +47 73 99 77 00 Fax +47 73 99 77 08 (email: sbp@marvin.mr.sintef.no) SCHEDULED LECTURES Ali, Simi - UK Targeted expression of microbial cellulases in transgenic animals Andresen, Otto - DK Ethyl glucoside esters of fatty acids, a unique class of surfactants Colman, Peter M. - AUS Design and properties of carbohydrate-based inhibitor of influenza virus neuraminidase Davies, Gideon - UK Structures of fungal cellulases Dijkhuizen, Lubbert - NL Protein engineering of CGTase from Bacillus circulans strain 251 Dordick, Jonathan S. - USA Chemoenzymatic modification of sugars and sugar derivatives for synthetic and polymeric applications. Driguez, Hugues - F Thiooligosaccharides: Toys or Tools for the studies of glycanases Feizi, Ten - UK New approaches to harnessing carbohydrate-mediated cell effector function Hart, Gerald W. - USA Temporal glycosylation of nuclear and cytoskeletal proteins Johnson, Louise N. - UK Enzyme-carbohydrate recognition for catalysis and drug design Kofod, Lene V. - DK Application of cloned monocomponent carbohydrases for modification of plant materials Kulbe, Klaus - A On the continuous transformation of various mono- and disaccharides by unspecific oxidoreductases Nilsson, Bo - S Analysis of protein glycosylation by mass spectroscopy Paulson, James C. - USA Carbohydrate blockers of leukocyte mediated disease Petersen, Steffen B. - N Electrostatic studies of carbohydrate active enzymes Remaud-Simeon, M. - F Studies of recombinant amylosucrase Robyt, John F. - USA Mechanism and action of glucansucrases Rossi, MosŠ - I Properties, production, structure and applicative prospects of the -glycosidase isolated from extremophile Sulfolobus solfataricus Schinzel, Reinhard - D Carbohydrate binding at the active site of E. coli maltodextrin phosphorylase Schrempf, Hildgund - D The chitinolytic system of Streptomyces olivaceoviridis Sharon, Nathan - ISR Glycans of glycoconjugates as modulatory and recognition molecules Soetaert, Wim - D A wide range of carbohydrate modifications by a single microorganism: Leuconostoc mesenteroides Spener, Friedrich - D Development of a novel enzyme based glucose sensor Svensson, Birte - DK Mutational analysis of catalytic mechanism and specificity in amylolytic enzymes de Taxis, du Poet, Ph. - B The EC Biotech and the 4th Framework Programme Teeri, Tuula - SF Modes of action of two cellobiohydrolases from Trichoderma reesei. van Halbeek, Herman - USA NMR studies of structure and dynamics of carbohydrates in solution. Warren, Tony - CAN Interactions of cellulases from Cellulomonas fimi with cellulose Welinder, Karen G. - DK Effects of glycosylation on protein folding, stability and solubility. Studies of engineered and chemically modified fungal and plant peroxidases Willmitzer, Lothar - D Transgenic plants as a tool to understand starch biosynthesis Withers, Stephen G. - CAN Enzymatic cleavage of glycosides: How does it happen ? ----------------------------------------------------------------------------- SOME IMPORTANT DATES Payment: Before January 20, 1995 - reduced registration and accomodation rate. Registration after January 20 is of course also possible, but at an increased rate, because the hotel reservations have to be confirmed on this date. Registration fee: Before Jan 20 : 4700 DKK - After Jan 20th 5500 DKK The registration includes: Participation, proceedings to be published by Elsevier after december 95, accomodation (arr Apr. 23, dep apr. 26) including all meals. If you are not interested in accomodation the registration fee is 2800 DKK - including proceedings and all meals. Poster abstract deadline: March 1, 1995. Please submit a laserprint hardcopy of your poster abstract (approx. 1-2 A4 pages) in addition to a DOS diskette with the document written in WordPerfect or MS Word. -------------------------------------------------------------------------- SESSION TOPICS : Structure of Carbohydrates Biological function and interaction is intimately linked to the 3D structure and dynamics of the molecules involved. The carbohydrates represent a special challenge because of their intrinsic flexibility and complex structural features. This session will aim at providing an overview of the current knowledge about the structure and dynamics of carbohydrates. Structure and function of Carbohydrate active enzymes This session will focus on the structure function relationship of carbohydrate active enzymes. With the ever-increasing number of 3D structures that have been determined by X-ray diffraction analysis, our understanding of the often intricate features of carbohydrate active enzymes is also growing. A special emphasis will be given to the structural interpretation of binding and catalysis of carbohydrates. Applications of protein engineering The protein engineering of carbohydrate metabolizing enzymes and their application in glycotechnology will be discussed in this session. The topics include analysis of structure/function relationships, crystallographic analysis and modelling of enzyme-ligand complexes, design and application of enzymes with altered specificity. Carbohydrates in Medicine Enzymatic modification/synthesis of therapeutic carbohydrates and the mechanism of action of their biological activity are to be discussed in this session. The session, as well as posters, intend to cover both protein-bound saccharides as well as oligo-/poly- saccharides and topics such as vaccine antigens, antivirals, antibacterials and cell adhesion blockers. Oligo- and Polysaccharides of industrial interest Production of novel oligosaccharides, that can be used for animal feed to improve the animal's weight gain and health and for human nutrition to provide calorie-reduced diets and to promote bifido- bacteria growth are examples of topics for this session as well as enzymatic modification of plant polysaccharides (gums). Production of Carbohydrate containging new materials Enzymatic synthesis of novel materials is the target for this session. Examples are sugar-containing polymers, which are receiving increasing attention as they may permit biocompatibility and biodegradibility and surfactants such as alkylglucosides. From owner-structural-nmr@net.bio.net Fri Dec 23 22:00:00 1994 Path: biosci!MAILBOX.SYR.EDU!wtwinter From: wtwinter@MAILBOX.SYR.EDU ("William T. Winter") Newsgroups: bionet.structural-nmr Subject: Re: H-1 shifts of complex-type carbohydrates Date: 23 Dec 1994 10:08:47 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 14 Sender: daemon@net.bio.net Distribution: world Message-ID: References: <3dcipi$an@mserv1.dl.ac.uk> there is a very useful data base of 1H and 13C nmr data on carbohydrates and polysaccharides available from Albert van Kuik at Utrecht University. The database is interroragted by a program called SUGABASE and the package is available (free to academics). Correspond with Dr. van Kuik at kuik@boc.chem.ruu.nl for further information. The program is available in UNIX and Windows versions =-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-= Dr. William T. Winter Phone: (315)470-6876 315 Baker Lab FAX: (315)470-6856 SUNY-ESF Internet: wtwinter@mailbox.syr.edu Syracuse, NY 13210-2786 From owner-structural-nmr@net.bio.net Mon Dec 26 22:00:00 1994 Path: biosci!BIOC01.UTHSCSA.EDU!raman From: raman@BIOC01.UTHSCSA.EDU (C.S.RAMAN) Newsgroups: bionet.structural-nmr Subject: School of Biological Magnetic Resonance, 2nd course Date: 27 Dec 1994 15:27:57 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 51 Sender: daemon@net.bio.net Distribution: world Message-ID: <9412272328.AA01179@bioc01.uthscsa.edu> NNTP-Posting-Host: net.bio.net International School of Biological Magnetic Resonance, 2nd Course: "Dynamics & the Problem of Recognition in Biological Macromolecules" May 19-30, 1995 Ettore Majorana Centre for Scientific Culture, Erice, Sicily, Italy An advanced graduate course devoted to the analysis of the dynamic behavior of biological macromolecules by nuclear magnetic resonance. 10 days of lectures, workshops and tutorials w/~20 lecturers - attendance limited to ~75 students. Sponsored by FEBS, NATO and the sponsors of the Ettore Majorana Centre. Registration including full room and board during course: $1,000 US. Some partial scholarships available. For information and/or registration contact either: holbrook@camis.stanford.edu (Ms. Robin Holbrook, Course Administrative Assistant) or the Directors: Dr. Oleg Jardetzky (Email: jardetzky@camis.stanford.edu Fax: 415/723-2253) or Dr. Jean-Francois Lefevre (Email: lefevre@bali.u-strasbg.fr Fax: +33/88 65 53 43) -- _/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/ _/ _/ _/ C.S.RAMAN _/ _/ Department of Biochemistry _/ _/ University of Texas Health Science Center _/ _/ 7703 Floyd Curl Drive _/ _/ San Antonio, TX 78284-7760 _/ _/ USA _/ _/ _/ _/ Tel: (210) 567-6623 _/ _/ Fax: (210) 567-6595 _/ _/ E-mail: raman@bioc01.uthscsa.edu _/ _/ _/ _/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/ _/ _/ _/ _/ _/ _/ _/ _/ _/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/ From owner-structural-nmr@net.bio.net Tue Dec 27 22:00:00 1994 Path: biosci!BIOC01.UTHSCSA.EDU!raman From: raman@BIOC01.UTHSCSA.EDU (C.S.RAMAN) Newsgroups: bionet.structural-nmr Subject: ISMAR-95 Date: 28 Dec 1994 10:19:31 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 72 Sender: daemon@net.bio.net Distribution: world Message-ID: <9412281819.AA01526@bioc01.uthscsa.edu> NNTP-Posting-Host: net.bio.net Meeting Announcement: Following is an update on plans for ISMAR-95, the 12th meeting of the International Society of Magnetic Resonance, to be held in Sydney, Australia in July, 1995. The program will commence at the Sydney Opera House on Sunday 16 July, with a mixer and special session to commemorate the 50th anniversary of the discovery of NMR, and continue at the University of Sydney from Monday 17 until Friday 21 July. Speakers who have accepted invitations include: Paul Callaghan (Palmerston, NZ), David Doddrell (Brisbane, Australia), Melinda Duer (Cambridge, UK), Richard Ernst (Z^_rich, Switzerland), Ray Freeman (Cambridge, UK), Maurice Goldman (Gif-sur-Yvette, France), Erwin Hahn (Berkeley, USA), Robin Harris (Durham, UK), James Hyde (Milwaukee, USA), Jean Jeener (Brussels, Belgium), Lewis Kay (Toronto, Canada), Carolyn Mountford (Sydney, Australia), Ray Norton (Melbourne, Australia), John Pilbrow (Melbourne, Australia), Alex Pines (Berkeley, USA), Charles Springer (New York, USA), Hal Swartz (Hanover, USA), Takehiko Terao (Kyoto, Japan), Keith Thulborn (Pittsburgh, USA), Kamil Ugurbil (Minneapolis, USA), Warren Warren (Princeton, USA), John Waugh (Cambridge, USA), Kurt W^_thrich (Z^_rich, Switzerland), Nino Yannoni (San Jose, USA). The deadline for submission of abstracts and normal registration is 1 April, 1995. The social program will include a cruise on Sydney Harbour and dinner in Sydney's historic Rocks area. Details of these events as well as information on satellite meetings, travel opportunities in Australia and an extensive range of accommodation options for the Conference are provided in the registration brochure. Please contact me for your copy of the brochure or any other general information about ISMAR-95. Cheers -raman -- _/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/ _/ _/ _/ C.S.RAMAN _/ _/ Department of Biochemistry _/ _/ University of Texas Health Science Center _/ _/ 7703 Floyd Curl Drive _/ _/ San Antonio, TX 78284-7760 _/ _/ USA _/ _/ _/ _/ Tel: (210) 567-6623 _/ _/ Fax: (210) 567-6595 _/ _/ E-mail: raman@bioc01.uthscsa.edu _/ _/ _/ _/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/ _/ _/ _/ Rien ne m'est seur que la chose uncertaine _/ _/ -Villon _/ _/ _/ _/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/ From owner-structural-nmr@net.bio.net Tue Dec 27 22:00:00 1994 Path: biosci!BIOC01.UTHSCSA.EDU!raman From: raman@BIOC01.UTHSCSA.EDU (C.S.RAMAN) Newsgroups: bionet.structural-nmr Subject: Re:ISMAR-95 - correction... Date: 28 Dec 1994 10:20:22 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 37 Sender: daemon@net.bio.net Distribution: world Message-ID: <9412281820.AA01535@bioc01.uthscsa.edu> NNTP-Posting-Host: net.bio.net The following information was left out from my previous post: Please contact Dr. Bill Bubb for additional information: Dr Bill Bubb Secretary, ISMAR-95 Department of Biochemistry University of Sydney Sydney NSW 2006 Australia Tel: +61-2-351-4120 Fax: +61-2-351-4726 E-mail: ismar95@biochem.su.oz.au -- _/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/ _/ _/ _/ C.S.RAMAN _/ _/ Department of Biochemistry _/ _/ University of Texas Health Science Center _/ _/ 7703 Floyd Curl Drive _/ _/ San Antonio, TX 78284-7760 _/ _/ USA _/ _/ _/ _/ Tel: (210) 567-6623 _/ _/ Fax: (210) 567-6595 _/ _/ E-mail: raman@bioc01.uthscsa.edu _/ _/ _/ _/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/ _/ _/ _/ Rien ne m'est seur que la chose uncertaine _/ _/ -Villon _/ _/ _/ _/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/