From owner-structural-nmr@net.bio.net Fri May 15 23:00:00 1998 Path: biosci!biosci!not-for-mail From: Robert Cushley Newsgroups: bionet.structural-nmr Subject: NMR post-doctoral position Date: 16 May 1998 10:01:12 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 39 Sender: daemon@net.bio.net Approved: raman@hemebase.bio.uci.edu Distribution: world Message-ID: <3.0.2.32.19980513104322.00805990@popserver.sfu.ca> NNTP-Posting-Host: net.bio.net BIOLOGICAL NMR POST-DOCTORAL POSITION Multidimensional NMR study of protein-protein interactions. Work with Senior Investigator on Bruker AMX600 Major Installation with triple resonance and z-gradients. Structure calculations using SGI Indigo2 and O2 computers. Preference will be given to candidates who are self-starters and have extensive experience in Xplor and NMRPipe. The main emphasis of our research group is to determine the 3-dimensional structures of the human serum apolipoproteins, structures of their protein-engineered mutants, and their interactions with enzymes. More information can be obtained at http://www.sfu.ca/~cushley. Salary will be commensurate with experience. Please send (e-mail is acceptable) cv with names and addresses of three referees to: Professor Robert J. Cushley Institute of Molecular Biology & Biochemistry Simon Fraser University 8888 University Drive Burnaby, BC V5A 1S6 Canada Phone: (604) 291-4230 FAX: (604) 291-5583 E-mail: cushley@sfu.ca *************************************************************** Professor Robert J. Cushley Institute of Molecular Biology & Biochemistry (and Department of Chemistry) Simon Fraser University 8888 University Drive Burnaby, BC V5A 1S6 Canada Phone: (604) 291-4230 FAX: (604) 291-5583 http://www.sfu.ca/~cushley/ *************************************************************** From owner-structural-nmr@net.bio.net Sun May 17 23:00:00 1998 Path: biosci!biosci!not-for-mail From: l.cranswick@dl.ac.uk (Lachlan Cranswick) Newsgroups: bionet.structural-nmr Subject: Resend: Announce: Structure Determination by Powder X-Ray Diffraction Round Robin Date: 18 May 1998 13:37:27 -0700 Organization: Daresbury Laboratory Lines: 42 Sender: daemon@net.bio.net Approved: raman@hemebase.bio.uci.edu Distribution: world Message-ID: <6jq667$af9@net.bio.net> NNTP-Posting-Host: net.bio.net STRUCTURE DETERMINATION BY POWDER DIFFRACTOMETRY ROUND ROBIN Organisers: Armel Le Bail (University of Le Mans) and Lachlan Cranswick (Daresbury Laboratory). (Deadline for submission of solutions - June 30, 1998) http://fluo.univ-lemans.fr:8001/SDPDRR/ This is to announce the availability of powder diffraction data as part of the Structure Determination by Powder Diffractometry Round Robin (SDPDRR). Participants have the option of solving one or both of two samples: i) An Inorganic Phase ii) An Organic Pharmaceutical Compound The data and information on the samples can be emailed, if web links are too slow or congested. A poster for pinning on department bulletin boards is available on the web-site. Background and protocol are available from the website. A summary of results will be presented at an invited talk on "Trends in Structure Determination from Powder Diffraction" at the August 1998 ECM-18 meeting in Prague. Armel Le Bail (E-mail: armel@fluo.univ-lemans.fr) Lachlan Cranswick (E-mail: l.cranswick@dl.ac.uk) Lachlan M. D. Cranswick Collaborative Computational Project No 14 (CCP14) for Single Crystal and Powder Diffraction Daresbury Laboratory, Warrington, WA4 4AD U.K Tel: +44 (0)1925-603703 Fax: +44 (0)1925-603124 Room C14 E-mail: l.cranswick@dl.ac.uk CCP14 Webpage (Under heavy reconstruction): http://www.dl.ac.uk/CCP/CCP14/ From owner-structural-nmr@net.bio.net Tue May 19 23:00:00 1998 Path: biosci!biosci!not-for-mail From: Philip Coughlin Newsgroups: bionet.structural-nmr Subject: Labelled Ubiquitin Date: 20 May 1998 12:04:52 -0700 Organization: Martek Biosciences Lines: 17 Sender: daemon@net.bio.net Approved: raman@hemebase.bio.uci.edu Distribution: world Message-ID: <35631D54.C25AA1EA@clark.net> Reply-To: sibs@clark.net NNTP-Posting-Host: net.bio.net Just a short note to let you know we have available ubiquitin labeled with any combination of 13C, 15N or 2H. If you are interested in more information please email back or call Martek Biosciences (http://www.martekbio.com) on 410 740 0081 or 1 800 338 9959. Please pass this information on to all interested parties. Many Thanks Dr. Philip E. Coughlin Senior Chemist Stable Isotope Group Martek Biosciences 6480 Dobbin Road Columbia MD 21045 USA From owner-structural-nmr@net.bio.net Wed May 20 23:00:00 1998 Path: biosci!biosci!not-for-mail From: "rlk" Newsgroups: bionet.structural-nmr Subject: Printing NMRPipe PS files Date: 21 May 1998 13:50:50 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 15 Sender: daemon@net.bio.net Approved: raman@hemebase.bio.uci.edu Distribution: world Message-ID: <9805211421.ZM19079@intrepid.chm.jhu.edu> References: <3.0.2.32.19980513104322.00805990@popserver.sfu.ca> NNTP-Posting-Host: net.bio.net Does anyone out there have a good method for printing and manipulating the output from SGI/NMRPipe on a PC? We're looking at buying some drawing program such as Canvas or Adobe Illustrator, but we've had problems opening these files on other computers. -- Ronald Koder The Institute for Biophysical Research on Macromolecular Assemblies The Johns Hopkins University 'if I can't dance, I don't want to be a part of your revolution' Emma Goldman From owner-structural-nmr@net.bio.net Sun May 24 23:00:00 1998 Path: biosci!biosci!not-for-mail From: CS Raman Newsgroups: bionet.structural-nmr Subject: Re: Printing NMRPipe PS files (fwd) Date: 25 May 1998 13:52:23 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 56 Sender: daemon@net.bio.net Approved: raman@hemebase.bio.uci.edu Distribution: world Message-ID: <199805252049.UAA26518@hemebase.bio.uci.edu> NNTP-Posting-Host: net.bio.net According to M.A. Delsuc: {*} From lpddist@dl.ac.uk Fri May 22 07:36:11 1998 {*} Precedence: first-class {*} To: bionet-structural-nmr@net.bio.net {*} Path: daresbury!not-for-mail {*} From: "M.A. Delsuc" {*} Newsgroups: bionet.structural-nmr {*} Subject: Re: Printing NMRPipe PS files {*} Date: 22 May 1998 08:36:06 +0100 {*} Lines: 42 {*} Sender: lpddist@dl.ac.uk {*} Message-ID: <6k39t6$c1f@mserv1.dl.ac.uk> {*} X-Sender: mad@tome.cbs.univ-montp1.fr {*} Original-To: str-nmr@dl.ac.uk {*} {*} In Reply to : "rlk" {*} >Does anyone out there have a good method for printing and manipulating {*} >the output from SGI/NMRPipe on a PC? We're looking at buying {*} >some drawing program such as Canvas or Adobe Illustrator, {*} >but we've had problems opening these files on other {*} >computers. {*} > {*} > {*} >-- {*} >Ronald Koder {*} >The Institute for Biophysical Research on Macromolecular Assemblies {*} >The Johns Hopkins University {*} > {*} >'if I can't dance, I don't want to be a part of your {*} > revolution' Emma Goldman {*} We were facing the same kind of problem, manipulating and printing plot outputs from XWINMR, Gifa and X screen dumps. The problem has been completely cured by using the program Tailor by enfocus software (http://www.enfocus.com). This program is able to read directly ANY KIND of Postscript files, and to manipulate them as you would do with Canvas or Adobe Illustrator. It also checks for PS errors, and is able to output files in several formats, including PICT, GIF, and PDF (the latest version of the online Gifa manual, now in pdf was done this way (Word -> ps -> pdf) ). For us this program is certainly worth its price, and performs exactly what we need. The only (small) drawback is the user interface of the drawing part which is not at the level of other graphic programs; so we still use Canvas to realize large graphics. We could get a demo version before buying the product (which is not expensive) it even seems that you can get it on their web site. Best Regards, _________________________________________________________________________ Marc-Andre' Delsuc Centre de Biochimie Structurale Marc-Andre.Delsuc@cbs.univ-montp1.fr Faculte de Pharmacie tel : (33) (0) 467 04 34 36 15 av, Charles Flahault fax : (33) (0) 467 52 96 23 34060 Montpellier cedex www : http://www.cbs.univ-montp1.fr FRANCE From owner-structural-nmr@net.bio.net Sun May 24 23:00:00 1998 Path: biosci!biosci!not-for-mail From: Michel Seigneuret Newsgroups: bionet.structural-nmr Subject: Re: Printing NMRPipe PS files Date: 25 May 1998 13:43:55 -0700 Organization: Universites Paris VI/Paris VII - France Lines: 32 Sender: daemon@net.bio.net Approved: raman@hemebase.bio.uci.edu Distribution: world Message-ID: <356941A5.41C6@lpbc.jussieu.fr> References: <3.0.2.32.19980513104322.00805990@popserver.sfu.ca> <9805211421.ZM19079@intrepid.chm.jhu.edu> NNTP-Posting-Host: net.bio.net rlk wrote: > > Does anyone out there have a good method for printing and manipulating > the output from SGI/NMRPipe on a PC? We're looking at buying > some drawing program such as Canvas or Adobe Illustrator, > but we've had problems opening these files on other > computers. > Postscript files are cannot be directly edited and have first to be converted to Adobe Illustrator format. Several programs are available to do this both for SGI and for PC. One solution for SGI is described in the SGI FAQ at: www.cis.ohio-state.edu/hypertext/faq/usenet/sgi/faq/apps/faq-doc-14.html Another solution for the PC is described in the manual of the freeware drawing program Mayura Draw available at www.wix.com/PageDraw. Both methods require to have Ghostscript installed. By the way, in my experience, Mayura Draw is very nice to manipulate NMR spectra outputs in ai format (eg. annotating, coloring specific crosspeaks, etc...) on a PC. And again it is free. Good luck. Michel -- Michel Seigneuret Universite Paris 6, Lab. de Physicochimie Biomoleculaire et Cellulaire 4, place Jussieu, 75252 Paris cedex 05, France tel 33 1 44277545, fax 33 1 44277560 From owner-structural-nmr@net.bio.net Wed May 27 23:00:00 1998 Path: biosci!biosci!not-for-mail From: Erin and Marty Rennells Newsgroups: bionet.structural-nmr Subject: NMR diffusion experiments Date: 27 May 1998 19:01:44 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 9 Sender: daemon@net.bio.net Approved: raman@hemebase.bio.uci.edu Distribution: world Message-ID: <356B5DC4.5EA9A072@fuse.net> Reply-To: merenn@fuse.net NNTP-Posting-Host: net.bio.net Can anyone explain the use of gradients during an experiment to measure the diffusion coefficients of small molecules and proteins using the LED sequence? I would like to understand the extraction of the information from the experiment from the "Brownian motion". Can someone also define Brownian motion? From owner-structural-nmr@net.bio.net Sun May 31 23:00:00 1998 Path: biosci!biosci!not-for-mail From: "Shohei Koide" Newsgroups: bionet.structural-nmr Subject: postdoctoral position Date: 1 Jun 1998 12:07:14 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 53 Sender: daemon@net.bio.net Approved: raman@hemebase.bio.uci.edu Distribution: world Message-ID: <9805281105.ZM27237@socks.biophysics.rochester.edu> NNTP-Posting-Host: net.bio.net Postdoctoral Position Available Immediately RESEARCH INTEREST We are interested in characterizing the solution structure of outer surface antigen proteins from the Lyme disease spirochete, and its interactions with antibodies. This is a collaborative project with molecular biology and immunology laboratories to rationally design a vaccine. We have performed extensive NMR characterization of an outer surface protein, OspA, including resonance assignments, stability measurements and epitope mapping (Nature Struct. Biol. (1998) 5, 115-119; J. Biomol. NMR in press; J. Mol. Biol. in press). We are expanding our project to other outer surface proteins. We already have NMR-ready samples of these proteins. The project involves resonance assignments and solution structure determination, defining the binding sites of monoclonal antibodies, and characterizing conformational dynamics and stability. WHERE Dr. Shohei Koide's laboratory (http://koide-pcp.biophysics.rochester.edu) Department of Biochemistry and Biophysics, University of Rochester Medical Center The University of Rochester has a growing structural biology community including four NMR and two crystallography groups. RESOURCES The Koide group has 50% machine time on a Varian Unity Inova 600 spectrometer with 4 RF channels and PFG. A GE Omega 400 is also available. The group has several SGI/SUN workstations for processing and structure calculation. The group has a fully equipped biochemistry and molecular biology laboratory. EXPERIENCE REQUIRED A successful candidate should have experience either in biophysical analysis of macromolecules or in protein biochemistry, and strong interest in protein structure. Strong background in one or more of the following fields is advantageous: triple resonance NMR spectroscopy solution structure determination molecular modeling protein expression and purification TO APPLY: Please send a CV and two reference letters to: Shohei Koide Department of Biochemistry and Biophysics University of Rochester Medical Center Box: 712 601 Elmwood Ave. Rochester, NY 14642 U.S.A. From owner-structural-nmr@net.bio.net Sun May 31 23:00:00 1998 Path: biosci!biosci!not-for-mail From: Steve Pascal Newsgroups: bionet.structural-nmr Subject: Protein NMR Postdoctoral Fellowship Date: 1 Jun 1998 13:10:22 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 23 Sender: daemon@net.bio.net Approved: raman@hemebase.bio.uci.edu Distribution: world Message-ID: <9806011942.AA22266@oxbow.biophysics.rochester.edu> NNTP-Posting-Host: net.bio.net Protein NMR Postdoctoral Fellowship A postdoctoral position is available immediately to study the structure and dynamics of proteins and protein complexes linked to apoptosis and cancer. The positions is fully funded for up to 3 years. Applicants with experience in multi-nuclear NMR spectroscopy and/or protein expression/purification should send a CV along with a telephone number and email address of three people familiar with their work to the address below. Email responses are encouraged. =========================================== Steve Pascal Assistant Professor Department of Biochemistry & Biophysics University of Rochester Medical Center Box 712 601 Elmwood Ave Rochester, NY 14642 716-273-4832 (voice) 716-275-6007 (fax) ===========================================