From owner-structural-nmr@net.bio.net Fri Jul 09 16:36:00 1999 Path: biosci!biosci!not-for-mail From: rama@protein.chem.psu.edu (Ramakrishna V.) Newsgroups: bionet.structural-nmr Subject: nmr data processing and analysis Date: 9 Jul 1999 10:36:27 -0700 Organization: MRC Human Genome Mapping Project Resource Centre Lines: 19 Sender: daemon@net.bio.net Approved: raman@bragg.bio.uci.edu Distribution: world Message-ID: <199907091700.NAA21813@protein.chem.psu.edu> NNTP-Posting-Host: net.bio.net dear netters, i am wondering if there are any PC based NMR data analysis software available . any information on this will be greatly appreciated. thanks in advance, ramakrishna vadrevu ************************************************** Dr. Ramakrishna Vadrevu Dept. of Chemistry Penn State University, University Park, PA 16802 email : rama@protein.chem.psu.edu ************************************************* --- From owner-structural-nmr@net.bio.net Tue Jul 20 16:37:00 1999 Path: biosci!biosci!not-for-mail From: Cung Manh Thong Newsgroups: bionet.structural-nmr Subject: Post-doctoral position Date: 20 Jul 1999 10:37:00 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 48 Sender: daemon@net.bio.net Approved: raman@bragg.bio.uci.edu Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net POST-DOCTORAL POSITION IN NMR, MOLECULAR MODELlING AND SIMULATION OF BIOMOLECULES Available immediately (one year) in Biostructure's group at the Laboratoire de Chimie Physique Macromol=E9culaire (LCPM), ENSIC-INPL, located in Nancy, =46RANCE. The position is related to the "High resolution 3D structure of the nicotinic acetylcholine receptor" project sustained by the CEC's Biotechnology Programme, which concerns research groups in biology, biochemistry, protein engineering, structure and design, X-ray crystallography, NMR and molecular dynamics. The fellow will work on a project involving 2D and 3D NMR (on Bruker DRX 600 MHz) and molecular dynamics to study recombinant antibody fragments, recombinant AChR polypeptides and the tyrosine phosphorylation sites of the AChR in interaction with specific monoclonal antibodies. Molecular computation will be performed on Unix Silicon Graphics workstations using Discover (MSI) programmes. Candidates should have a Ph. D. and some experience in 2D and 3D-NMR and/or computer programming, in particular in molecular dynamics simulation. Candidates from any country (France included) may apply. Any applicant should send his/her curriculum vitae to : Dr Manh Thong CUNG Laboratoire de Chimie Physique Macromol=E9culaire UMR CNRS-INPL 7568, Groupe ENSIC, 1, rue Grandville, B.P. 451 54001 Nancy-cedex, FRANCE =46ax : (33) (0)3 83 37 99 77 E-mail : cung@lcpm.ensic.u-nancy.fr ************************************* CUNG Manh Thong Directeur de Recherches CNRS LCPM - UMR 7568 CNRS-INPL Groupe ENSIC, BP 451, 1 rue Grandville 54001 NANCY Cedex (France) TEL (33)03 83 17 51 07 =46AX (33)03 83 37 99 77 http://www.ensic.u-nancy.fr/ENSIC/LCPM/biostruc.html ************************************* From owner-structural-nmr@net.bio.net Thu Jul 22 13:06:00 1999 Path: biosci!biosci!not-for-mail From: jyri@biophys.su.se (=?iso-8859-1?Q?J=FCri?= Jarvet) Newsgroups: bionet.structural-nmr Subject: D2O viscosity Date: 22 Jul 1999 07:06:20 -0700 Organization: Stockholm University Lines: 32 Sender: daemon@net.bio.net Approved: raman@bragg.bio.uci.edu Distribution: world Message-ID: <3795EC84.469DEBDA@biophys.su.se> NNTP-Posting-Host: net.bio.net --------------2166EA54850C58E47F4141B1 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit Dear colleagues, I would like to find D2O viscosity values for temperatures below 30:C or does anyone know of a literature reference. ________ J|ri Jarvet Dept. of Biophysics Stockholm University --------------2166EA54850C58E47F4141B1 Content-Type: text/html; charset=us-ascii Content-Transfer-Encoding: 7bit Dear colleagues,

I would like to find D2O viscosity values for temperatures
below 30ºC or does anyone know of a literature reference.

________
Jüri Jarvet
Dept. of Biophysics
Stockholm University --------------2166EA54850C58E47F4141B1-- From owner-structural-nmr@net.bio.net Thu Jul 22 13:07:00 1999 Path: biosci!biosci!not-for-mail From: geoff@ebi.ac.uk (Geoff Barton) Newsgroups: bionet.structural-nmr Subject: UPDATE: EMBL-EBI Macromolecular Structure Database and the PDB Date: 22 Jul 1999 07:07:50 -0700 Organization: EMBL-European Bioinformatics Institute Lines: 93 Sender: daemon@net.bio.net Approved: raman@bragg.bio.uci.edu Distribution: world Message-ID: <7n78jm$g14@net.bio.net> NNTP-Posting-Host: net.bio.net UPDATE: EMBL-EBI Macromolecular Structure Database and the PDB http://msd.ebi.ac.uk 1. GLASGOW IUCr MEETING If you are at the Glasgow meeting, you are welcome to visit our stand (5-9 August) and to attend the information session starting at 12:00 on 11th August. 2. DEPOSITION OF NEW STRUCTURES TO PDB AT EBI You may deposit structures to the PDB using AutoDep at EBI ( http://autodep.ebi.ac.uk ). If you need help completing the forms, please email pdbhelp@ebi.ac.uk. We will normally reply quickly during 09:00-17:00 GMT working hours. A PDB ID code will be issued by email as soon as the AutoDep session is completed. WHO PROCESSES DEPOSITIONS MADE AT EBI? All depositions made at EBI since 15th June 1999 have been processed by EBI- MSD staff. Entries that have been reviewed by the authors and reached their release date are forwarded each Monday to the RCSB for general distribution through the ftp site on Wednesday. WHAT IS THE FUTURE OF AUTODEP AT EBI? EBI-MSD is developing a new system for the management of data on the three dimensional structure of macromolecules. The deposition interface to this system will be phased-in starting in the Autumn of 1999. A demonstration of the new deposition system will be made at the IUCr Glasgow conference. DEPOSITIONS IN THE USA You can deposit to the PDB at the RCSB using the ADIT system (http://pdb.rutgers.edu). RCSB are also supporting AutoDep for continuing submissions started at Brookhaven National Laboratory. Data submitted to the USA site are processed by the RCSB. DOES IT MAKE ANY DIFFERENCE WHERE I DEPOSIT MY DATA? No. EBI-MSD and RCSB work closely to maintain consistent data processing procedures. You should choose the deposition site that is most convenient for your time zone. 3. QUERYING THE PDB There are a very large number of services on the WWW that provide access to the PDB and data derived from it. In this section we only mention tools that are directly related to the EBI-MSD, the former PDB at BNL and the RCSB. 3DB BROWSER EBI-MSD are continuing to support querying of the PDB by the tools http://www2.ebi.ac.uk/pdb-bin/pdbmain and http://www2.ebi.ac.uk/pdb-bin/pdblite. However, we are not enhancing or developing them. NEW EBI-MSD TOOLS Extensive work at EBI on clean-up of the legacy PDB files has led to the development of the following services: PQS http://msd.ebi.ac.uk/Services/Quaternary/quaternary.html provides access to the probable quaternary structures of macromolecules. 3Dseq http://msd.ebi.ac.uk/Services/Sequence/sequence.html provides a direct mapping between the PDB and SWISS-PROT sequence database at the residue level. Residue differences are annotated. Unpublished References http://msd.ebi.ac.uk/Services/UnPubRef/unpubref.html provides links to references for structures listed as Unpublished. New search tools are under development by the EBI-MSD project and these will be announced as they become available. NEW RCSB SEARCH TOOLS The RCSB offer a range of search tools. Please see http://www.rcsb.org/pdb/searchlite.html for information. 4. PDB FTP SITE AT EBI The RCSB maintain the ftp site that contains PDB format data files. At EBI we provide a full mirror (ftp://ftp.ebi.ac.uk/pub/databases/pdb) of this site in the same form as it was maintained by the former PDB at BNL. We will shortly also support a new simplified RCSB ftp site structure. 5. FEEDBACK If you believe you have found a problem with a released PDB entry, or have any questions or suggestions about EBI-MSD services, then please let us know by email to: pdbhelp@ebi.ac.uk. ------------ Geoff Barton, EMBL-European Bioinformatics Institute, Genome Campus, Hinxton, Cambs CB10 1SD, U.K., mailto:geoff@ebi.ac.uk http://barton.ebi.ac.uk, Tel: +44 1223 494414, Fax: +44 1223 494496 http://msd.ebi.ac.uk, EMBL-EBI Macromolecular Structure Database From owner-structural-nmr@net.bio.net Tue Jul 27 20:15:00 1999 Path: biosci!biosci!not-for-mail From: "Jurgen F. Doreleijers" Newsgroups: bionet.structural-nmr Subject: AQUA version update Date: 27 Jul 1999 14:15:28 -0700 Organization: BMRB, University of Wisconsin, Madison, USA Lines: 24 Sender: daemon@net.bio.net Approved: raman@bragg.bio.uci.edu Distribution: world Message-ID: <379E1797.FAC62401@bmrb.wisc.edu> NNTP-Posting-Host: net.bio.net Dear subscribers of this mailing list, The latest AQUA version (3.0) now available is capable of calculating the level of completeness of NOEs based on the structure. The program can handle NOE restraints from most NMR software packages (e.g. X-PLOR, MSI, DYANA and AQUA). The easiest way to try the completeness module of AQUA is via one of the Biotech servers (http://biotech.embl-heidelberg.de:8400/) but a stand-alone program can be obtained as well following the directions from (http://www.nmr.chem.uu.nl/users/rull/aqua.html).  The method and results for many NMR structures have been described in: "Completeness of NOEs in proteins, a statistical analysis of NMR data". J. Biomol. NMR 14, 123-132, 1999. Hope it helps, Jurgen -- Jurgen F. Doreleijers BMRB, Biochemistry, UW, Madison, WI, USA mailto:jurgen@bmrb.wisc.edu Tel: ++1 608 263 9496 Fax: ++1 608 262 3759 From owner-structural-nmr@net.bio.net Tue Jul 27 20:17:00 1999 Path: biosci!biosci!not-for-mail From: N Rama Krishna PhD Newsgroups: bionet.structural-nmr Subject: NMR Facility Manager Date: 27 Jul 1999 14:17:35 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 139 Sender: daemon@net.bio.net Approved: raman@bragg.bio.uci.edu Distribution: world Message-ID: <49CCC1B30678D211A78800A0C9CE008C19D270@biochem-cellbio.bhs.uab.edu> NNTP-Posting-Host: net.bio.net This message is in MIME format. Since your mail reader does not understand this format, some or all of this message may not be legible. ------_=_NextPart_001_01BED86C.701207D0 Content-Type: text/plain; charset="iso-8859-1" 7/27/99 NMR Facility Manager Position available immediately to join the staff at the UAB NMR Core Facility. The instrumentation consists of Bruker Avance Spectrometers operating at 600 MHz and 500 MHz with X,Y,Z-gradients and triple resonance probes, an AM- 400, and SGI workstations. Duties include spectrometer maintenance, cryogen refills, routine samples, collaborative research involving multidimensional NMR studies on labeled proteins, and computer system management. The position provides an excellent opportunity for publications and for professional growth. A Ph.D. degree and some prior experience in multidimensional NMR and spectrometer maintenance are highly desirable. Please send a resume and two letters of recommendation immediately to : Dr. N. Rama Krishna NMR Core Facility, Cancer Center CHSB-19 B-31, 933 South 19th Street, University of Alabama at Birmingham, Birmingham, AL 35294-2041. E-Mail: NRKrishna@bmg.bhs.uab.edu Fax:(205)934-6475. ***************************************************** N. Rama Krishna, Ph.D. Professor of Biochemistry Director, NMR Core Facility University of Alabama at Birmingham CHSB-19 B-31, 933 19th Street South Birmingham, AL 35294-2041 Phone: (205)934-5695 Fax: (205)934-6475 E-mail: NRKrishna@bmg.bhs.uab.edu http://main.uab.edu/show.asp?durki=15021 ****************************************************** ------_=_NextPart_001_01BED86C.701207D0 Content-Type: text/html; charset="iso-8859-1" Content-Transfer-Encoding: quoted-printable NMR Facility Manager

7/27/99

NMR Facility = Manager   =

Position available immediately to = join the staff at the UAB NMR Core Facility. The instrumentation = consists of Bruker Avance Spectrometers operating at 600 MHz and  = 500 MHz  with X,Y,Z-gradients and triple resonance probes, an AM- = 400, and SGI workstations.  Duties include  spectrometer = maintenance, cryogen refills, routine samples,  collaborative = research involving multidimensional NMR studies on labeled proteins, = and computer system management.  The position provides an = excellent opportunity for publications and for professional growth. A = Ph.D. degree and some prior experience in multidimensional NMR and = spectrometer maintenance are highly desirable.  Please send a = resume and two letters of recommendation immediately to :

Dr. N. Rama = Krishna

NMR Core Facility, = Cancer Center

CHSB-19 B-31, 933 = South 19th Street,

University of Alabama = at Birmingham,

Birmingham, AL = 35294-2041. 

E-Mail: = NRKrishna@bmg.bhs.uab.edu

Fax:(205)934-6475.



*****************************************************
N. Rama Krishna, Ph.D.
Professor of Biochemistry
Director, NMR Core Facility
University of Alabama at = Birmingham
CHSB-19  B-31, 933 19th Street = South
Birmingham, AL 35294-2041

Phone: (205)934-5695
Fax:     = (205)934-6475
E-mail: = NRKrishna@bmg.bhs.uab.edu
http://main.uab.edu/show.asp?durki=3D15021<= /U>
******************************************************

------_=_NextPart_001_01BED86C.701207D0-- From owner-structural-nmr@net.bio.net Wed Jul 28 13:17:00 1999 Path: biosci!biosci!not-for-mail From: jackson@psipsy.uct.ac.za ("Graham E Jackson") Newsgroups: bionet.structural-nmr Subject: mercury verses advance Date: 28 Jul 1999 07:17:24 -0700 Organization: MRC Human Genome Mapping Project Resource Centre Lines: 30 Sender: daemon@net.bio.net Approved: raman@bragg.bio.uci.edu Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Dear All, I am about to purchase a new nmr spectrometer. For the same price I have been offered a Varian Mercury VX and a Bruker ADVANCE. Both are two channel instruments which is all we need. Is there any other difference between the two instuments? Also, what is the difference between the Varian INOVA and the Mercury VX, other than the fact that the number of channels on the INOVA can be increased? Thanks for any comments Graham Graham E Jackson Associate Professor Department of Chemistry University of Cape Town Cape Town South Africa Fax: (027 21) 6897499 Tel: (027 21) 6502531 E-mail: jackson@psipsy.uct.ac.za http://www.uct.ac.za/depts/cem/academic/gjackson.htm ---