From owner-repertoires@net.bio.net Mon Dec 02 22:00:00 1996 Path: biosci!U.ARIZONA.EDU!jim From: jim@U.ARIZONA.EDU (jim) Newsgroups: bionet.molecules.repertoires Subject: about t cell receptor data base.. Date: 3 Dec 1996 11:49:58 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 15 Sender: daemon@net.bio.net Distribution: world Message-ID: <32A493B4.7203@aruba.ccit.arizona.edu> Reply-To: jim@U.Arizona.EDU NNTP-Posting-Host: net.bio.net hello guys.. i have a question.. is there any data base which has all the t cell receptor sequences including alpha and beta chain ? or is there anybody who already established ? i treid to download from genenbank but i found several family members are missing in my data base... help me out of the death! thanks in advance Jsim From owner-repertoires@net.bio.net Mon Dec 02 22:00:00 1996 Path: biosci!bmg.bhs.uab.edu!BMOORE From: BMOORE@bmg.bhs.uab.edu ("bryan") Newsgroups: bionet.molecules.repertoires Subject: I am looking for proteins! Date: 3 Dec 1996 13:19:16 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 19 Sender: daemon@net.bio.net Distribution: world Message-ID: <4AC11AD2139@bmg.bhs.uab.edu> Reply-To: bryan NNTP-Posting-Host: net.bio.net I need several suggestions for proteins that have the following qualities: 1. globular and between 10-60 KD 2. the cDNA is available 3. they have a terminus that is near the external of the folded structure so that I can add a linker to the end and not disrupt the native structure. 4. Significantly stable 5. To fulfill my wish list it would be nice to have a published crystal structure. These proteins do not need to have any enzymatic activity. I simply need a protein that I can put on the end of a serine/alanine linker that will fold in an predictable manner. Any suggestions are welcomed! Thank You! Bryan Moore Department of Biochemistry and Molecular Genetics University of Alabama at Birmingham From owner-repertoires@net.bio.net Tue Dec 03 22:00:00 1996 Newsgroups: bionet.molecules.repertoires Path: biosci!ihnp4.ucsd.edu!swrinde!howland.erols.net!EU.net!usenet2.news.uk.psi.net!uknet!usenet1.news.uk.psi.net!uknet!uknet!bcc.ac.uk!t.chappell From: t.chappell@ucl.ac.uk (Tom Chappell) Subject: Re: I am looking for proteins! Sender: news@ucl.ac.uk (Usenet News System) Message-ID: Date: Wed, 4 Dec 1996 13:00:31 GMT Content-Transfer-Encoding: 8bit Content-Type: text/plain; charset=ISO-8859-1 References: <4AC11AD2139@bmg.bhs.uab.edu> Mime-Version: 1.0 Organization: MRC LMCB X-Newsreader: Yet Another NewsWatcher 2.2.0b12 Lines: 27 In article <4AC11AD2139@bmg.bhs.uab.edu>, bryan wrote: >I need several suggestions for proteins that have the following >qualities: > 1. globular and between 10-60 KD > 2. the cDNA is available > 3. they have a terminus that is near the external of the folded >structure so that I can add a linker to the end and not disrupt the >native structure. > 4. Significantly stable > 5. To fulfill my wish list it would be nice to have a published >crystal structure. > >These proteins do not need to have any enzymatic activity. I simply need >a protein that I can put on the end of a serine/alanine linker that will >fold in an predictable manner. > >Any suggestions are welcomed! Thank You! >Bryan Moore >Department of Biochemistry and Molecular Genetics >University of Alabama at Birmingham GFP - although I'm not sure it folds "in a predictable manner" I'm not really sure what you mean by that. From owner-repertoires@net.bio.net Tue Dec 03 22:00:00 1996 Path: biosci!ihnp4.ucsd.edu!swrinde!howland.erols.net!news.nacamar.de!news-kar1.dfn.de!news-stu1.dfn.de!news-mue1.dfn.de!news-nue1.dfn.de!uni-erlangen.de!lrz-muenchen.de!news From: Boris Steipe Newsgroups: bionet.molecules.repertoires Subject: Re: about t cell receptor data base.. Date: Wed, 04 Dec 1996 12:43:22 +0000 Organization: Genzentrum Lines: 9 Distribution: world Message-ID: <32A56F30.5D57@LMB.uni-muenchen.de> References: <32A493B4.7203@aruba.ccit.arizona.edu> Reply-To: steipe@LMB.uni-muenchen.de NNTP-Posting-Host: bs_boris.lmb.uni-muenchen.de Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0Gold (Macintosh; I; PPC) > is there any data base which has all the t cell receptor sequences > including alpha and beta chain ? Try the KABAT Database: greetings, Boris From owner-repertoires@net.bio.net Thu Dec 05 22:00:00 1996 Newsgroups: bionet.molecules.repertoires Path: biosci!agate!nntpfeed.doc.ic.ac.uk!sunsite.doc.ic.ac.uk!lyra.csx.cam.ac.uk!hgmp.mrc.ac.uk!ebi.ac.uk!saturn.ebi.ac.uk!apweiler From: apweiler@saturn.ebi.ac.uk (Rolf Apweiler) Subject: Re: about t cell receptor data base.. Sender: news@ebi.ac.uk (usenet news) Message-ID: Date: Fri, 6 Dec 1996 09:18:56 GMT Lines: 25 Reply-To: apweiler@saturn.ebi.ac.uk (Rolf Apweiler) References: <32A493B4.7203@aruba.ccit.arizona.edu> Organization: European Bioinformatics Institute (EMBL) - UK X-Newsreader: mxrn 6.18-31 In article <32A493B4.7203@aruba.ccit.arizona.edu>, jim@U.ARIZONA.EDU (jim) writes: >hello guys.. > >i have a question.. >is there any data base which has all the t cell receptor sequences >including alpha and beta chain ? > Try IMGT (http://www.ebi.ac.uk/imgt/) The ImMunoGeneTics database, IMGT, is an integrated specialised database containing nucleotide sequence information of genes important in the function of the immune system. It collects and annotates sequences belonging to the immunoglobulin superfamily which are involved in immune recognition, these are the B cell antigen receptor (Immunoglobulin or Ig), the T cell antigen receptor (TcR) (LIGM-database) and the class I and class II molecules of the Major Histocompatibility Complex (MHC), in humans the later are referred to as the Human Leucocyte Antigens (HLA) system (HLA-DB). IMGT works in close collaboration with the EMBL and the EMBL database maintained by the EMBL Outstation EBI (European Bioinformatics Institute) and uses sequence information from the EMBL database for expert annotation. Cheers Rolf From owner-repertoires@net.bio.net Sun Dec 08 22:00:00 1996 Path: biosci!qub.ac.uk!a.wallace From: a.wallace@qub.ac.uk (Andrew Wallace) Newsgroups: bionet.molecules.repertoires Subject: Re: bacterial mRNA Date: 9 Dec 1996 11:24:27 -0800 Organization: Queens University Belfast Lines: 27 Sender: daemon@net.bio.net Distribution: world Message-ID: <32AC6768.71F@qub.ac.uk> Reply-To: a.wallace@queens-belfast.ac.uk NNTP-Posting-Host: net.bio.net > > Dear netter > Are there sequence elements (5-10 bases) in the 3' end (or the > 3'most part) of bacterial mRNA that are universally conserved among > bacteria and not e.g. present in rRNA sequences. I would be happy if > anyone who knows could e-mail me the answer or write me how to find > out. > > Warmest regards > Valur Emilsson > Clore Laboratory > UK > > -- > Clore Laboratory > Sorry that you don't seem to be having much luck in getting a reply to this message - looks like no-one on this newsgroup knows the answer to your question. Do you mean something like the equivalent of a poly-A tail in eukaryotic mRNA? Andrew -- ================================================================== Andrew Wallace,Ph.D., Queen's University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html ================================================================== From owner-repertoires@net.bio.net Sun Dec 08 22:00:00 1996 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed1.bbnplanet.com!news.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.mindspring.com!mindspring!uunet!in2.uu.net!192.109.159.3!news.gtn.com!inn.aball.de!on-line.leine.de!yamato.leine.de From: mapstool@B-52.zer Newsgroups: bionet.molecules.repertoires Subject: Autoinit-Mail Date: 8 Dec 96 01:51:44 +0100 Message-ID: <239DD2202EMM001@mapstool.chatline.zer> X-Gateway: ZCONNECT UH online.leine.de [UUCPfZ V5.81 U055] Lines: 2 ! From owner-repertoires@net.bio.net Tue Dec 10 22:00:00 1996 Path: biosci!qub.ac.uk!a.wallace From: a.wallace@qub.ac.uk (Andrew Wallace) Newsgroups: bionet.molecules.repertoires Subject: Molreps FAQ for December 1996 Date: 11 Dec 1996 03:18:08 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 307 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net M O L R E P S F R E Q U E N T L Y A S K E D Q U E S T I O N S ************* ******************* ********* ***************** **1 Where can I obtain libraries?** 1.1 _Phage Libraries_ You can try approaching the following people and organisations: 1.1.1 pIII/6-mer, pIII/15-mer, pVIII-4/15-mer libraries: George Smith, University of Missouri, FAX +1-573-882-0123 1.1.2 pVIII/9-mer, pVIII/9-merCys and pVIII/zinc-finger phagemid libraries: Alessandra Luzzago, IRBM P. Angeletti, luzzago@irbm.it Franco Felici, IRBM P. Angeletti, felici@irbm.it (NON-COMMERCIAL USERS ONLY) 1.1.3 Antibody scFvs with synthetic CDRs: Greg Winter, MRC-LMB Cambridge, gw@mrc-lmb.cam.ac.uk Contact Fiona Sait at fs1@mrc-lmb.cam.ac.uk (NON-COMMERCIAL USERS ONLY) 1.1.4 Commercial Sources: Stratagene (Fab fragments in phage lambda) Affymax Pharmacia Cambridge Antibody Technology New England Biolabs (pIII/7-mer). (NEB catalog, p.166). see also this URL -> http://vent.neb.com/neb/phd/phd.html pSKAN Phagemid Display System from MoBiTec via NBL (+44-1670) 733015 EZtrap Phage Display cDNA libraries-AMS Biotechnology (+44-1993) 706500 1.2 _Synthetic Peptide Libraries_ 1.2.1 Commercial Sources: Affymax Chiron Corporation Most of the major peptide companies will custom-synthesise a library to your requirements. 1.3 _Nucleic Acid Libraries_ (Aptamers) 1.3.1 Jack Szostak at Harvard medical school? 1.3.2 NEXUS corporation (Larry Gold)? 1.4 _Organic Chemical Libraries_ 1.4.1 Affymax? 1.4.2 Parke-Davis (DIVERSOMERS)? **2) Where can I get anti-phage antibodies?** 2.1 anti-pIII MAb from Michael Tesar mte@venus.gbf-braunschweig.d400.de 2.2 anti-pIII polyclonals from GATC, a German company, FAX +49-7531-57313 TEL +49-7531-57204 2.3 rabbit anti-M13 from Stratagene. 2.4 sheep anti M13 phage sheep anti M13 phage biotinylated 5 Prime - 3 Prime Boulder CO (800)533-5703 **3) How can I make my own libraries?** 3.1 _Phage Libraries_ You can obtain suitable vectors and strains from most of the sources in 1). For phagemid work you can buy XL-1 Blue cells from Stratagene and M13K07 helper phage from Pharmacia. 3.2 _Synthetic Peptide Libraries_ 3.2.1 Manual synthesis Houghten's "Tea Bag" method Geysen's "Pin" method MULTIBLOCK method - see http://www.azstarnet.com/~mlebl Any of these can be adapted to produce either support-bound or soluble libraries. 3.2.2 Automated synthesis Chiron Corporation (Zuckermann) Advanced Chemtech (Commercial robot for 75K sterling) 3.3 _Nucleic Acid Libraries_ 3.3.1 PCR methods 3.4 _Organic Chemical Libraries_ 3.4.1 Manual synthesis 3.4.2 Automated synthesis (Advanced Chemtech) **4) How can I analyse the results of my selection?** 4.1 Insert sequencing (phage libraries) 4.2 Micropanning (Smith and Scott, Methods Enzymol. (1993) 217:228-257) 4.3 Dot-blotting (Felici et al., J. Mol. Biol. (1991) 222:301-310) 4.4 ELISA (Smith and Scott, Methods Enzymol. (1993) 217:228-257) (Dente et al. Gene (1994) 148:7-13) 4.5 Colony immunoscreening (Christian et al. J. Mol. Biol. (1992) 227, 711-718) (Felici et al. Gene (1993) 128, 21-27) 4.5 Plaque immunoscreening (Luzzago et al., Gene (1993) 128:51-57) (Felici et al., Methods Enzymol. (1996) 267:116-129) **5) Are there any World Wide Web (WWW) sites about molreps?** 5.1 http://www.bio.net/ - The BIOSCI web site itself (MOLREPS message archive) 5.2 http://bionmr1.rug.ac.be/chemistry/overview.html - A useful chemistry site 5.3 http://vesta.pd.com/ - Site for the journal MOLECULAR DIVERSITY 5.4 http://www.mrc-cpe.cam..ac.uk/imt-doc/vbase-home-page.html - Immunoglobulin v-gene database 5.5 http://molbio.info.nih.gov/molbio/desk.html - Molecular biologists desk reference 5.6 http://www.Kairos-scientific.com/ - Kairos scientific home page 5.7 http://www-lmmb.ncifcrf.gov/~toms/sequencelogo.html - Tom Schneider's Sequence Logo 5.8 http://www.ebi.ac.uk/ - The European Bioinformatics Institute (EBI) 5.9 http://www.ebi.ac.uk/primers_home.html - PCR primers database at EBI 5.10 http://aminoacid.bri.nrc.ca:1125/ - Database of building blocks for library synthesis 5.11 http://vent.neb.com/neb/phd/phd.html - PHD phage library at New England Biolabs 5.12 ftp://ftp.netcom.com/pub/qu/quincicc/maxim.html - Another library source 5.13 http://www.ebi.ac.uk/imgt/ - Database of genes of immunological importance 5.14 http://immuno.bme.nwu.edu/ - Kabat database of proteins of immunological interest **6) Do phage absorb non-specifically to ELISA plates?** Yes, use MaxiSorp plates for best binding. Answer by: Pascal Mertens Laboratoire d'Immunologie et Microbiologie URBM-FUNDP 61 Rue de Bruxelles 5000 Namur, BELGIUM **7) What is the difference between pfu and TU?** PFU: if you titer a phage lysate for plaques, this is the number of plaques you get per unit volume (plaque forming units). In simple terms, this is the phage titer you observe when working with a functional phage. TU: If you have packaged phagemids, these don't form plaques because they are esentially plasmids. However you can use them to get Amp-R colonies (or whatever antibiotic) after infection of suitable recipient bacterial strain. TU is the same as PFU above except you are looking for transduction to Amp-R colonies instead of plaques. TU titration can be also used for phage vectors bearing an antibiotic resistance gene (for example: fd-tet and its derivatives, etc.). These both are measures of viable packaged particles in a lysate. The number of actual virions may be very different. These can only be measured by some physical technique such as electron microscopy or indirectly by an Elisa assay or something similar. But often many virions are not functional and will not give actual plaques, hence the PFU value is not always the same as the number of actual virions. But nobody generally measures the number of virions. Sometimes it is important to estimate the effective number of packaged particles in a lysate. For example, for calculating ligand/ligate ratio during selections, or for quantitative binding assays, or when using phage preparations for animal immunization, etc. Virion concentration in purified (CsCl) preparation can be estimated as Absorbance at 269nm x 6 x 10e16 / (bases/ssDNA), see Smith and Scott (1993) Methods in Enzymology 217:228-257. Note that the difference in numbers between PFU (or TU) and number of packaged particles in a lysate also depends on the efficiency of the bacterial cells in being infected (see the same above chapter for a protocol for preparation of starved F' cells). Michael Benedik Department of Biochemical Sciences University of Houston benedik@uh.edu Franco Felici, IRBM, Pomezia (Rome), Italy felici@irbm.it ------------------------------------------------------------------ Andrew Wallace, Ph.D, Queen's University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html From owner-repertoires@net.bio.net Tue Dec 10 22:00:00 1996 Path: biosci!qub.ac.uk!a.wallace From: a.wallace@qub.ac.uk (Andrew Wallace) Newsgroups: bionet.molecules.repertoires Subject: IBC Display Technologies Conference Date: 11 Dec 1996 02:59:05 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 201 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ ANNOUNCEMENT IBC's International Conference on Display Technologies In Protein Engineering, Drug Discovery, Molecular Evolution and Vaccine Development February 10-11, 1997 * Caesars Tahoe Hotel and Casino * Lake Tahoe, NV +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ Drug Design * Small molecule drugs from phage * Vaccine developments * Protease inhibitors * High affinity agonists and antagonists * bFGF inhibitors * IL-1 receptor antagonists * Kunitz domain inhibitors of serine proteases * Structure/function analysis * Disease-specific epitopes Alternate Display Technologies * Phage and bacterial library crossing *FLITRX * Novel biological diversity systems * Filamentous phage selection * Eukaryotic virus display New Targets * Orphan sites * Genomics * Selection by catalytic activity * In vivo systems * BNP analogs * Zymogen Emerging Approaches * Phage and bioinformatics * In vivo panning * Protein-protein interactions * Rebuilding proteins by size reduction * Screening of cDNA expression libraries * Modified receptor interactions * Protein Modules IBC gratefully acknowledges Jill Winter of Chiron Corporation for her assistance as a scientific advisor for this meeting. Complimentary book to the first 50 paid, registered delegates! Phage Display of Peptides and Proteins is an insightful step-by-step discussion of phage display protocols for preparing affinity reagents, monoclonal antibodies and evolved proteins. Both novices and experts will benefit from this book which outlines strategies for maximizing the successful application of phage display technology to one's research. Editors: Brian K. Kay, University of North Carolina, Jill Winter, Chiron Corporation, John McCafferty, Cambridge Antibody Technology. Complimentary copies will be given to the first 50 fully paid, registered delegates of this meeting. Books may be picked up by delegates during conference registration. For more information, or to order your own copy of this book ($39.95), please contact Academic Press directly. Phone: 1-800-321-5068, Fax: 1-800-874-6418, E-mail ap@acad.com or visit their WWW site at http://www.apnet.com Please quote the following number when you order: REGISTRATION INFORMATION IBC USA Conferences, Inc. 225 Turnpike Road Southborough, MA 01772-1749, U.S.A. Tel: (508) 481-6400 * Fax: (508) 481-7911 E-mail: reg@ibcusa.com On-line: http://www.io.org/~ibc/phage Monday, February 10, 1997 8:00 Registration, Poster/Exhibit Set-Up, Coffee and Breakfast Bakeries Display Technologies in Peptide Optimization 9:00 Chairperson's Welcome and Opening Remarks Riccardo Cortese, M.D., Ph.D., Scientific and Managing Director, IRBM, Italy 9:15 Discovering Orphan Sites on Multifunctional Proteins by Phage Display Steve Rosenberg, Ph.D., Senior Director of Biological Chemistry, Chiron Corporation 9:45 Defining Peptide Binding Motif for MHC Class I Molecules Using Phage Display and Artificial Neural Networks Michael P. Jackson, Ph.D., Director, RW Johnson Pharmaceutical Research Institute 10:15 Poster/Exhibit Viewing and Refreshment Break 11:00 Selection Of Disease-Specific Epitopes Using Serum Samples and Phage Displayed Libraries Riccardo Cortese, M.D., Ph.D. 11:30 A Library of Organic Landscapes on Filamentous Phage Valery A. Petrenko, Ph.D., Research Professor, University of Missouri 12:00 Luncheon Display Technologies in Protein Libraries and Protein Optimization 1:15 Chairperson's Remarks Jane Osbourn, Ph.D., Senior Scientist, Cambridge Antibody Technology, United Kingdom 1:30 Functional Analysis and Engineering of Heregulin Using Phage Display Marcus D. Ballinger, Ph.D., Postdoctoral Fellow, Genentech, Inc. 2:00 Exploiting the Diversity of Large Phage Libraries Jane Osbourn, Ph.D. 2:30 Phage Display and Activation of a Zymogen Laurent S. Jespers, Ph.D., Senior Scientist, Center for Transgene Technology and Gene Therapy, Flanders Interuniversity Institute for Biotechnology, Belgium 3:00 Poster/Exhibit Viewing and Refreshment Break 3:45 Selection of BNP Analogs that Have Modified Natriuretic Peptide Receptor Interactions Lisa J. Garrard, Ph.D., Senior Scientist, Scios, Inc. 4:15 The Design of Potent and Specific Kunitz Domain Inhibitors of Serine Proteases: Utilization of Phage Display and Competitive Selection Mark S. Dennis, Senior Research Associate, Genentech, Inc. 4:45 Custom Affinity Ligands from Phage Display for Large-Scale Purifications Charles Arthur Ley, Ph.D., Director of Research, Dyax Corporation 5:15 Close of Day One Tuesday, February 11, 1997 7:30 Poster/Exhibit Viewing, Coffee and Breakfast Bakeries Alternate Display Technologies 8:15 Chairperson's Remarks Andreas Pluckthun, Ph.D., Professor of Biochemistry, University of Zurich, Switzerland 8:30 Selectively Infective Phage (SIP) Andreas Pluckthun, Ph.D. 9:00 The FLITRX E. coli Random Peptide Library Brian C. Tripp, Ph.\D., Postdoctoral Research Fellow, Genetics Institute, Inc. 9:30 Combining Bacterial and Phage Display for Potential Gene Identification Carl Borrebaeck, D.Sc., Professor, Lund University, Sweden 10:00 Poster/Exhibit Viewing and Refreshment Break 10:45 Eukaryotic Virus Display Ian Jones, Ph.D., Group Leader, Institute of Virology and Environmental Microbiology, UK From Libraries to Drugs 11:15 Chairperson's Remarks Brian K. Kay, Ph.D., Associate Professor, University of North Carolina 11:30 Use of Recombinant Peptide Libraries to Identify High Affinity IL-1R Type I Antagonists Stephen Yanofsky, Ph.D., Senior Scientist, Molecular Pharmacology, Affymax Research Institute 12:00 Use of Phage Libraries of Long Peptides in Drug Discovery Wlodek Mandecki, Ph.D., Director, Molecular Immunology, DGI Biotechnologies 12:30 Lunch on your own 1:45 Peptide Inhibitors of Basic FGF David Israel, Ph.D., Director of Cell Biology, Pharmaceutical Peptides, Inc. 2:15 Cloning Novel Genes with Phage-Displayed Peptide Ligands Brian K. Kay, Ph.D. 2:45 Searching for Magic Bullets from Peptide Libraries Erkki Ruoslahti, M.D., President and CEO, The Burnham Institute 3:15 Poster/Exhibit Viewing and Refreshment Break 3:45 The Use of Peptides as Informants in the Design of Novel Vaccines and Drugs Peter Laing, Ph.D., Director of Research, Peptide Therapeutics, United Kingdom 4:15 Small Molecule Drugs from Phage Display Selected Proteins Robert Charles Ladner, Ph.D., Chief Scientific Officer and Senior Vice President, Dyax Corp. 4:45 Human cDNA Phage Display: A New System for Discovering Drug Targets Allan Peng, Ph.D., President, GeneMax, Inc. 5:15 Close of Conference Targets Allan Peng, Ph.D., President, GeneMax, Inc. 5:15 Close of Conference From owner-repertoires@net.bio.net Tue Dec 10 22:00:00 1996 Path: biosci!qub.ac.uk!a.wallace From: a.wallace@qub.ac.uk (Andrew Wallace) Newsgroups: bionet.molecules.repertoires Subject: Re: I am looking for proteins! Date: 11 Dec 1996 02:55:05 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 46 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net On Wed, 4 Dec 1996 13:00:31 GMT Tom Chappell wrote: > In article <4AC11AD2139@bmg.bhs.uab.edu>, bryan wrote: > > >I need several suggestions for proteins that have the following > >qualities: > > 1. globular and between 10-60 KD > > 2. the cDNA is available > > 3. they have a terminus that is near the external of the > folded > >structure so that I can add a linker to the end and not disrupt the > >native structure. > > 4. Significantly stable > > 5. To fulfill my wish list it would be nice to have a > published > >crystal structure. > > > >These proteins do not need to have any enzymatic activity. I simply need > >a protein that I can put on the end of a serine/alanine linker that will > >fold in an predictable manner. > > > >Any suggestions are welcomed! Thank You! > >Bryan Moore > >Department of Biochemistry and Molecular Genetics > >University of Alabama at Birmingham > > > GFP - although I'm not sure it folds "in a predictable manner" I'm not > really sure what you mean by that. > How about a nice single chain Fv antibody fragment? 1. Globular, beta-sheet topography protein. 2. Around 20-25 kDa. 3. Stable, reliable folding, some even fold in cell cytoplasm. 4. Tags can be added at the termini. 5. A number of antibody structures are available. Andrew ------------------------------------------------------------------ Andrew Wallace, Ph.D, Queen's University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html From owner-repertoires@net.bio.net Wed Dec 11 22:00:00 1996 Path: biosci!daresbury!not-for-mail From: Andrew Wallace Newsgroups: bionet.molecules.repertoires Subject: Molreps FAQ for December 1996 Date: 9 Dec 1996 19:12:40 -0000 Organization: Queens University Belfast Lines: 310 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <58hob8$9cq@mserv1.dl.ac.uk> Reply-To: a.wallace@queens-belfast.ac.uk MIME-Version: 1.0 Original-To: molreps@dl.ac.uk M O L R E P S F R E Q U E N T L Y A S K E D Q U E S T I O N S ************* ******************* ********* ***************** **1 Where can I obtain libraries?** 1.1 _Phage Libraries_ You can try approaching the following people and organisations: 1.1.1 pIII/6-mer, pIII/15-mer, pVIII-4/15-mer libraries: George Smith, University of Missouri, FAX +1-573-882-0123 1.1.2 pVIII/9-mer, pVIII/9-merCys and pVIII/zinc-finger phagemid libraries: Alessandra Luzzago, IRBM P. Angeletti, luzzago@irbm.it Franco Felici, IRBM P. Angeletti, felici@irbm.it (NON-COMMERCIAL USERS ONLY) 1.1.3 Antibody scFvs with synthetic CDRs: Greg Winter, MRC-LMB Cambridge, gw@mrc-lmb.cam.ac.uk Contact Fiona Sait at fs1@mrc-lmb.cam.ac.uk (NON-COMMERCIAL USERS ONLY) 1.1.4 Commercial Sources: Stratagene (Fab fragments in phage lambda) Affymax Pharmacia Cambridge Antibody Technology New England Biolabs (pIII/7-mer). (NEB catalog, p.166). see also this URL -> http://vent.neb.com/neb/phd/phd.html pSKAN Phagemid Display System from MoBiTec via NBL (+44-1670) 733015 EZtrap Phage Display cDNA libraries-AMS Biotechnology (+44-1993) 706500 1.2 _Synthetic Peptide Libraries_ 1.2.1 Commercial Sources: Affymax Chiron Corporation Most of the major peptide companies will custom-synthesise a library to your requirements. 1.3 _Nucleic Acid Libraries_ (Aptamers) 1.3.1 Jack Szostak at Harvard medical school? 1.3.2 NEXUS corporation (Larry Gold)? 1.4 _Organic Chemical Libraries_ 1.4.1 Affymax? 1.4.2 Parke-Davis (DIVERSOMERS)? **2) Where can I get anti-phage antibodies?** 2.1 anti-pIII MAb from Michael Tesar mte@venus.gbf-braunschweig.d400.de 2.2 anti-pIII polyclonals from GATC, a German company, FAX +49-7531-57313 TEL +49-7531-57204 2.3 rabbit anti-M13 from Stratagene. 2.4 sheep anti M13 phage sheep anti M13 phage biotinylated 5 Prime - 3 Prime Boulder CO (800)533-5703 **3) How can I make my own libraries?** 3.1 _Phage Libraries_ You can obtain suitable vectors and strains from most of the sources in 1). For phagemid work you can buy XL-1 Blue cells from Stratagene and M13K07 helper phage from Pharmacia. 3.2 _Synthetic Peptide Libraries_ 3.2.1 Manual synthesis Houghten's "Tea Bag" method Geysen's "Pin" method MULTIBLOCK method - see http://www.azstarnet.com/~mlebl Any of these can be adapted to produce either support-bound or soluble libraries. 3.2.2 Automated synthesis Chiron Corporation (Zuckermann) Advanced Chemtech (Commercial robot for 75K sterling) 3.3 _Nucleic Acid Libraries_ 3.3.1 PCR methods 3.4 _Organic Chemical Libraries_ 3.4.1 Manual synthesis 3.4.2 Automated synthesis (Advanced Chemtech) **4) How can I analyse the results of my selection?** 4.1 Insert sequencing (phage libraries) 4.2 Micropanning (Smith and Scott, Methods Enzymol. (1993) 217:228-257) 4.3 Dot-blotting (Felici et al., J. Mol. Biol. (1991) 222:301-310) 4.4 ELISA (Smith and Scott, Methods Enzymol. (1993) 217:228-257) (Dente et al. Gene (1994) 148:7-13) 4.5 Colony immunoscreening (Christian et al. J. Mol. Biol. (1992) 227, 711-718) (Felici et al. Gene (1993) 128, 21-27) 4.5 Plaque immunoscreening (Luzzago et al., Gene (1993) 128:51-57) (Felici et al., Methods Enzymol. (1996) 267:116-129) **5) Are there any World Wide Web (WWW) sites about molreps?** 5.1 http://www.bio.net/ - The BIOSCI web site itself (MOLREPS message archive) 5.2 http://bionmr1.rug.ac.be/chemistry/overview.html - A useful chemistry site 5.3 http://vesta.pd.com/ - Site for the journal MOLECULAR DIVERSITY 5.4 http://www.mrc-cpe.cam.ac.uk/imt-doc/vbase-home-page.html - Immunoglobulin v-gene database 5.5 http://molbio.info.nih.gov/molbio/desk.html - Molecular biologists desk reference 5.6 http://www.Kairos-scientific.com/ - Kairos scientific home page 5.7 http://www-lmmb.ncifcrf.gov/~toms/sequencelogo.html - Tom Schneider's Sequence Logo 5.8 http://www.ebi.ac.uk/ - The European Bioinformatics Institute (EBI) 5.9 http://www.ebi.ac.uk/primers_home.html - PCR primers database at EBI 5.10 http://aminoacid.bri.nrc.ca:1125/ - Database of building blocks for library synthesis 5.11 http://vent.neb.com/neb/phd/phd.html - PHD phage library at New England Biolabs 5.12 ftp://ftp.netcom.com/pub/qu/quincicc/maxim.html - Another library source 5.13 http://www.ebi.ac.uk/imgt/ - Database of genes of immunological importance 5.14 http://immuno.bme.nwu.edu/ - Kabat database of proteins of immunological interest **6) Do phage absorb non-specifically to ELISA plates?** Yes, use MaxiSorp plates for best binding. Answer by: Pascal Mertens Laboratoire d'Immunologie et Microbiologie URBM-FUNDP 61 Rue de Bruxelles 5000 Namur, BELGIUM **7) What is the difference between pfu and TU?** PFU: if you titer a phage lysate for plaques, this is the number of plaques you get per unit volume (plaque forming units). In simple terms, this is the phage titer you observe when working with a functional phage. TU: If you have packaged phagemids, these don't form plaques because they are esentially plasmids. However you can use them to get Amp-R colonies (or whatever antibiotic) after infection of suitable recipient bacterial strain. TU is the same as PFU above except you are looking for transduction to Amp-R colonies instead of plaques. TU titration can be also used for phage vectors bearing an antibiotic resistance gene (for example: fd-tet and its derivatives, etc.). These both are measures of viable packaged particles in a lysate. The number of actual virions may be very different. These can only be measured by some physical technique such as electron microscopy or indirectly by an Elisa assay or something similar. But often many virions are not functional and will not give actual plaques, hence the PFU value is not always the same as the number of actual virions. But nobody generally measures the number of virions. Sometimes it is important to estimate the effective number of packaged particles in a lysate. For example, for calculating ligand/ligate ratio during selections, or for quantitative binding assays, or when using phage preparations for animal immunization, etc. Virion concentration in purified (CsCl) preparation can be estimated as Absorbance at 269nm x 6 x 10e16 / (bases/ssDNA), see Smith and Scott (1993) Methods in Enzymology 217:228-257. Note that the difference in numbers between PFU (or TU) and number of packaged particles in a lysate also depends on the efficiency of the bacterial cells in being infected (see the same above chapter for a protocol for preparation of starved F' cells). Michael Benedik Department of Biochemical Sciences University of Houston benedik@uh.edu Franco Felici, IRBM, Pomezia (Rome), Italy felici@irbm.it -- ================================================================== Andrew Wallace,Ph.D., Queen's University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html ================================================================== From owner-repertoires@net.bio.net Wed Dec 11 22:00:00 1996 Path: biosci!daresbury!not-for-mail From: Andrew Wallace Newsgroups: bionet.molecules.repertoires Subject: IBC Display Technologies Conference Date: 9 Dec 1996 19:06:11 -0000 Organization: Queens University Belfast Lines: 188 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <58hnv3$94g@mserv1.dl.ac.uk> Reply-To: a.wallace@queens-belfast.ac.uk MIME-Version: 1.0 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ CONFERENCE ANNOUNCEMENT ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ IBC's International Conference on Display Technologies In Protein Engineering, Drug Discovery, Molecular Evolution and Vaccine Development February 10-11, 1997 * Caesars Tahoe Hotel and Casino * Lake Tahoe, NV ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ Drug Design * Small molecule drugs from phage * Vaccine developments * Protease inhibitors * High affinity agonists and antagonists * bFGF inhibitors * IL-1 receptor antagonists * Kunitz domain inhibitors of serine proteases * Structure/function analysis * Disease-specific epitopes Alternate Display Technologies * Phage and bacterial library crossing *FLITRX * Novel biological diversity systems * Filamentous phage selection * Eukaryotic virus display New Targets * Orphan sites * Genomics * Selection by catalytic activity * In vivo systems * BNP analogs * Zymogen Emerging Approaches * Phage and bioinformatics * In vivo panning * Protein-protein interactions * Rebuilding proteins by size reduction * Screening of cDNA expression libraries * Modified receptor interactions * Protein Modules IBC gratefully acknowledges Jill Winter of Chiron Corporation for her assistance as a scientific advisor for this meeting. Complimentary book to the first 50 paid, registered delegates! Phage Display of Peptides and Proteins is an insightful step-by-step discussion of phage display protocols for preparing affinity reagents, monoclonal antibodies and evolved proteins. Both novices and experts will benefit from this book which outlines strategies for maximizing the successful application of phage display technology to one's research. Editors: Brian K. Kay, University of North Carolina, Jill Winter, Chiron Corporation, John McCafferty, Cambridge Antibody Technology. Complimentary copies will be given to the first 50 fully paid, registered delegates of this meeting. Books may be picked up by delegates during conference registration. For more information, or to order your own copy of this book ($39.95), please contact Academic Press directly. Phone: 1-800-321-5068, Fax: 1-800-874-6418, E-mail ap@acad.com or visit their WWW site at http://www.apnet.com Please quote the following number when you order: REGISTRATION INFORMATION IBC USA Conferences, Inc. 225 Turnpike Road Southborough, MA 01772-1749, U.S.A. Tel: (508) 481-6400 * Fax: (508) 481-7911 E-mail: reg@ibcusa.com On-line: http://www.io.org/~ibc/phage Monday, February 10, 1997 8:00 Registration, Poster/Exhibit Set-Up, Coffee and Breakfast Bakeries Display Technologies in Peptide Optimization 9:00 Chairperson's Welcome and Opening Remarks Riccardo Cortese, M.D., Ph.D., Scientific and Managing Director, IRBM, Italy 9:15 Discovering Orphan Sites on Multifunctional Proteins by Phage Display Steve Rosenberg, Ph.D., Senior Director of Biological Chemistry, Chiron Corporation 9:45 Defining Peptide Binding Motif for MHC Class I Molecules Using Phage Display and Artificial Neural Networks Michael P. Jackson, Ph.D., Director, RW Johnson Pharmaceutical Research Institute 10:15 Poster/Exhibit Viewing and Refreshment Break 11:00 Selection Of Disease-Specific Epitopes Using Serum Samples and Phage Displayed Libraries Riccardo Cortese, M.D., Ph.D. 11:30 A Library of Organic Landscapes on Filamentous Phage Valery A. Petrenko, Ph.D., Research Professor, University of Missouri 12:00 Luncheon Display Technologies in Protein Libraries and Protein Optimization 1:15 Chairperson's Remarks Jane Osbourn, Ph.D., Senior Scientist, Cambridge Antibody Technology, United Kingdom 1:30 Functional Analysis and Engineering of Heregulin Using Phage Display Marcus D. Ballinger, Ph.D., Postdoctoral Fellow, Genentech, Inc. 2:00 Exploiting the Diversity of Large Phage Libraries Jane Osbourn, Ph.D. 2:30 Phage Display and Activation of a Zymogen Laurent S. Jespers, Ph.D., Senior Scientist, Center for Transgene Technology and Gene Therapy, Flanders Interuniversity Institute for Biotechnology, Belgium 3:00 Poster/Exhibit Viewing and Refreshment Break 3:45 Selection of BNP Analogs that Have Modified Natriuretic Peptide Receptor Interactions Lisa J. Garrard, Ph.D., Senior Scientist, Scios, Inc. 4:15 The Design of Potent and Specific Kunitz Domain Inhibitors of Serine Proteases: Utilization of Phage Display and Competitive Selection Mark S. Dennis, Senior Research Associate, Genentech, Inc. 4:45 Custom Affinity Ligands from Phage Display for Large-Scale Purifications Charles Arthur Ley, Ph.D., Director of Research, Dyax Corporation 5:15 Close of Day One Tuesday, February 11, 1997 7:30 Poster/Exhibit Viewing, Coffee and Breakfast Bakeries Alternate Display Technologies 8:15 Chairperson's Remarks Andreas Pluckthun, Ph.D., Professor of Biochemistry, University of Zurich, Switzerland 8:30 Selectively Infective Phage (SIP) Andreas Pluckthun, Ph.D. 9:00 The FLITRX E. coli Random Peptide Library Brian C. Tripp, Ph.\D., Postdoctoral Research Fellow, Genetics Institute, Inc. 9:30 Combining Bacterial and Phage Display for Potential Gene Identification Carl Borrebaeck, D.Sc., Professor, Lund University, Sweden 10:00 Poster/Exhibit Viewing and Refreshment Break 10:45 Eukaryotic Virus Display Ian Jones, Ph.D., Group Leader, Institute of Virology and Environmental Microbiology, UK From Libraries to Drugs 11:15 Chairperson's Remarks Brian K. Kay, Ph.D., Associate Professor, University of North Carolina 11:30 Use of Recombinant Peptide Libraries to Identify High Affinity IL-1R Type I Antagonists Stephen Yanofsky, Ph.D., Senior Scientist, Molecular Pharmacology, Affymax Research Institute 12:00 Use of Phage Libraries of Long Peptides in Drug Discovery Wlodek Mandecki, Ph.D., Director, Molecular Immunology, DGI Biotechnologies 12:30 Lunch on your own 1:45 Peptide Inhibitors of Basic FGF David Israel, Ph.D., Director of Cell Biology, Pharmaceutical Peptides, Inc. 2:15 Cloning Novel Genes with Phage-Displayed Peptide Ligands Brian K. Kay, Ph.D. 2:45 Searching for Magic Bullets from Peptide Libraries Erkki Ruoslahti, M.D., President and CEO, The Burnham Institute 3:15 Poster/Exhibit Viewing and Refreshment Break 3:45 The Use of Peptides as Informants in the Design of Novel Vaccines and Drugs Peter Laing, Ph.D., Director of Research, Peptide Therapeutics, United Kingdom 4:15 Small Molecule Drugs from Phage Display Selected Proteins Robert Charles Ladner, Ph.D., Chief Scientific Officer and Senior Vice President, Dyax Corp. 4:45 Human cDNA Phage Display: A New System for Discovering Drug Targets Allan Peng, Ph.D., President, GeneMax, Inc. 5:15 Close of Conference From owner-repertoires@net.bio.net Wed Dec 11 22:00:00 1996 Path: biosci!daresbury!not-for-mail From: Andrew Wallace Newsgroups: bionet.molecules.repertoires Subject: IBC International Conference on Display Technologies Announcement Date: 9 Dec 1996 12:29:08 -0000 Lines: 98 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <58h0mk$evj@mserv1.dl.ac.uk> Original-Sender: awallace@uk.ac.qub MIME-Version: 1.0 X-Authentication: none Read-Receipt-To: Andrew Wallace Original-To: molreps@dl.ac.uk IBC=D5s International Conference on Display Technologies=0AIn Protein Engin= eering, Drug Discovery, Molecular Evolution and Vaccine =0ADevelopment=0AFe= bruary 10-11, 1997 * Caesars Tahoe Hotel and Casino * Lake Tahoe, NV=0A=0A= =09=09=09=09=09Drug Design=0A* Small molecule drugs from phage * Vaccine de= velopments * Protease inhibitors * =0AHigh affinity agonists and antagonist= s * bFGF inhibitors * IL-1 receptor antagonists * =0AKunitz domain inhibito= rs of serine proteases * Structure/function analysis * Disease-=0Aspecific = epitopes=0A=0A=09=09=09=09Alternate Display Technologies=0A* Phage and bact= erial library crossing *FLITRX * Novel biological diversity systems * =0AFi= lamentous phage selection * Eukaryotic virus display=0A=0A=09=09=09=09=09Ne= w Targets =0A* Orphan sites * Genomics * Selection by catalytic activity * = In vivo systems * BNP =0Aanalogs =0A* Zymogen =0A=0A=09=09=09=09 Emerg= ing Approaches=0A* Phage and bioinformatics * In vivo panning * Protein-pro= tein interactions * Rebuilding =0Aproteins by size reduction * Screening of= cDNA expression libraries * Modified receptor =0Ainteractions * Protein Mo= dules=0A=0AIBC gratefully acknowledges Jill Winter of Chiron Corporation fo= r her assistance as a =0Ascientific advisor for this meeting.=0A=0AComplime= ntary book to the first 50 paid, registered delegates!=0APhage Display of P= eptides and Proteins is an insightful step-by-step discussion of phage =0Ad= isplay protocols for preparing affinity reagents, monoclonal antibodies and= evolved =0Aproteins. Both novices and experts will benefit from this book = which outlines strategies =0Afor maximizing the successful application of p= hage display technology to one=D5s =0Aresearch. Editors: Brian K. Kay, Univ= ersity of North Carolina, Jill Winter, Chiron =0ACorporation, John McCaffer= ty, Cambridge Antibody Technology. Complimentary copies =0Awill be given to= the first 50 fully paid, registered delegates of this meeting. Books may = =0Abe picked up by delegates during conference registration. For more infor= mation, or to =0Aorder your own copy of this book ($39.95), please contact = Academic Press directly. =0APhone: 1-800-321-5068, Fax: 1-800-874-6418, E-m= ail ap@acad.com or visit their WWW =0Asite at http://www.apnet.com Please q= uote the following number when you order:=0A=0AREGISTRATION INFORMATION=0AI= BC USA Conferences, Inc.=0A225 Turnpike Road=0ASouthborough, MA 01772-1749,= U.S.A.=0ATel: (508) 481-6400 * Fax: (508) 481-7911=0AE-mail: reg@ibcusa.co= m=0AOn-line: http://www.io.org/~ibc/phage=0A=0AMonday, February 10, 1997=0A= 8:00 =09Registration, Poster/Exhibit Set-Up, Coffee and Breakfast Bakeries= =0A=0ADisplay Technologies in Peptide Optimization=0A9:00 =09Chairperson=D5= s Welcome and Opening Remarks=0ARiccardo Cortese, M.D., Ph.D., Scientific a= nd Managing Director, IRBM, Italy=0A=0A9:15 =09Discovering Orphan Sites on = Multifunctional Proteins by Phage Display=0ASteve Rosenberg, Ph.D., Senior = Director of Biological Chemistry, Chiron Corporation=0A=0A9:45 =09Defining = Peptide Binding Motif for MHC Class I Molecules Using Phage Display =0Aand = Artificial Neural Networks=0AMichael P. Jackson, Ph.D., Director, RW Johnso= n Pharmaceutical Research Institute=0A=0A10:15 =09Poster/Exhibit Viewing and Refreshment Break=0A=0A= 11:00 =09Selection Of Disease-Specific Epitopes Using Serum Samples and Pha= ge =0ADisplayed Libraries=0ARiccardo Cortese, M.D., Ph.D.=0A=0A11:30 =09A L= ibrary of Organic Landscapes on Filamentous Phage=0AValery A. Petrenko, Ph.= D., Research Professor, University of Missouri=0A=0A12:00 =09Luncheon=0A=0A= Display Technologies in Protein Libraries and Protein Optimization=0A1:15 = =09Chairperson=D5s Remarks=0AJane Osbourn, Ph.D., Senior Scientist, Cambrid= ge Antibody Technology, United Kingdom=0A=0A1:30 =09Functional Analysis and= Engineering of Heregulin Using Phage Display=0AMarcus D. Ballinger, Ph.D.,= Postdoctoral Fellow, Genentech, Inc.=0A=0A2:00 =09Exploiting the Diversity= of Large Phage Libraries=0AJane Osbourn, Ph.D.=0A=0A2:30 =09Phage Display = and Activation of a Zymogen=0ALaurent S. Jespers, Ph.D., Senior Scientist, = Center for Transgene Technology and Gene =0ATherapy, Flanders Interuniversi= ty Institute for Biotechnology, Belgium =0A=0A3:00 =09Poster/Exhibit Viewin= g and Refreshment Break=0A=0A3:45 =09Selection of BNP Analogs that Have Mod= ified Natriuretic Peptide Receptor =0AInteractions=0ALisa J. Garrard, Ph.D.= , Senior Scientist, Scios, Inc. =0A=0A4:15 =09The Design of Potent and Spec= ific Kunitz Domain Inhibitors of Serine =0AProteases: Utilization of Phage = Display and Competitive Selection=0AMark S. Dennis, Senior Research Associa= te, Genentech, Inc.=0A=0A4:45 =09Custom Affinity Ligands from Phage Display= for Large-Scale Purifications=0ACharles Arthur Ley, Ph.D., Director of Res= earch, Dyax Corporation=0A=0A5:15 =09Close of Day One=0A=0ATuesday, Februar= y 11, 1997=0A7:30 =09Poster/Exhibit Viewing, Coffee and Breakfast Bakeries = =0A=0AAlternate Display Technologies=0A8:15 =09Chairperson=D5s Remarks=0AAn= dreas Pluckthun, Ph.D., Professor of Biochemistry, University of Zurich, Sw= itzerland=0A=0A8:30 =09Selectively Infective Phage (SIP)=0AAndreas Pluckthu= n, Ph.D.=0A=0A9:00 =09The FLITRX E. coli Random Peptide Library=0ABrian C. = Tripp, Ph.\D., Postdoctoral Research Fellow, Genetics Institute, Inc.=0A=0A= 9:30 =09Combining Bacterial and Phage Display for Potential Gene Identifica= tion=0ACarl Borrebaeck, D.Sc., Professor, Lund University, Sweden=0A=0A10:0= 0 =09Poster/Exhibit Viewing and Refreshment Break=0A=0A10:45 =09Eukaryotic = Virus Display=0AIan Jones, Ph.D., Group Leader, Institute of Virology and E= nvironmental Microbiology, UK=0A=0AFrom Libraries to Drugs=0A11:15 =09Chair= person=D5s Remarks=0ABrian K. Kay, Ph.D., Associate Professor, University o= f North Carolina=0A=0A11:30 =09Use of Recombinant Peptide Libraries to Iden= tify High Affinity IL-1R Type I =0AAntagonists=0AStephen Yanofsky, Ph.D., S= enior Scientist, Molecular Pharmacology, Affymax Research =0AInstitute=0A= =0A12:00 =09Use of Phage Libraries of Long Peptides in Drug Discovery=0AWlo= dek Mandecki, Ph.D., Director, Molecular Immunology, DGI Biotechnologies=0A= =0A12:30 =09Lunch on your own=0A=0A1:45 =09Peptide Inhibitors of Basic FGF= =0ADavid Israel, Ph.D., Director of Cell Biology, Pharmaceutical Peptides, = Inc.=0A=0A2:15 =09Cloning Novel Genes with Phage-Displayed Peptide Ligands = =0ABrian K. Kay, Ph.D.=0A=0A2:45 =09Searching for Magic Bullets from Peptid= e Libraries=0AErkki Ruoslahti, M.D., President and CEO, The Burnham Institute=0A= =0A3:15 =09Poster/Exhibit Viewing and Refreshment Break=0A=0A3:45 =09The Us= e of Peptides as Informants in the Design of Novel Vaccines and Drugs=0APet= er Laing, Ph.D., Director of Research, Peptide Therapeutics, United Kingdom= =0A=0A4:15 =09Small Molecule Drugs from Phage Display Selected Proteins=0AR= obert Charles Ladner, Ph.D., Chief Scientific Officer and Senior Vice Presi= dent, Dyax =0ACorp.=0A=0A4:45 =09Human cDNA Phage Display: A New System for= Discovering Drug Targets=0AAllan Peng, Ph.D., President, GeneMax, Inc.=0A= =0A5:15 =09Close of Conference=0A=0A=0A=0A=0A=0A---------------------------= ---------------------------------------=0AAndrew Wallace, Ph.D, Queen's Un= iversity Belfast, N. Ireland (UK)=0Aa.wallace@qub.ac.uk http://web.qub.a= c.uk/bb/awpage/wallace.html=0A From owner-repertoires@net.bio.net Wed Dec 11 22:00:00 1996 Path: biosci!daresbury!not-for-mail From: Andrew Wallace Newsgroups: bionet.molecules.repertoires Subject: Calling EMBO course people Date: 12 Dec 1996 17:50:56 -0000 Organization: Queens University Belfast Lines: 18 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <58pgm0$5r9@mserv1.dl.ac.uk> Reply-To: a.wallace@queens-belfast.ac.uk MIME-Version: 1.0 Original-To: a.wallace@qub.ac.uk Hello all you EMBO phage display course people out there! By now, you should be subscribed to this molecular repertoires (molreps) mailing list, so if you see this message and you were on the EMBO/SISSA/ICGEB phage display course in Trieste, please send me a reply as a test. Regards, Andrew P.S. If you have a web browser, another way to follow these discussions is to point it to the following URL: http://www.bio.net/hypermail/MOLECULAR-REPERTOIRES/ -- ================================================================== Andrew Wallace,Ph.D., Queens University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html ================================================================== From owner-repertoires@net.bio.net Wed Dec 11 22:00:00 1996 Path: biosci!qub.ac.uk!a.wallace From: a.wallace@qub.ac.uk (Andrew Wallace) Newsgroups: bionet.molecules.repertoires Subject: Looking for EU partners Date: 12 Dec 1996 04:32:56 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 30 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Dear Colleagues, I am setting up an application to the EU Framework IV Biotech 2 programme for a concerted action on Phage Display and I am looking for partners from EU-EFTA member countries as well as Australia and possibly also Switzerland, Canada, South Africa, Israel, CEC and NIS countries. Groups from the USA may not participate. If you work in the phage display field in one of the eligible countries and are interested in collaborating to obtain travel money for networking (no research money available, sorry) then please contact me at the address below. Andrew Wallace Centre for Peptide and Protein Engineering Queens University Belfast 97 Lisburn Road Belfast BT9 7BL, UK Tel. +44-1232-335787 Fax. +44-1232-236505 a.wallace@qub.ac.uk ------------------------------------------------------------------ Andrew Wallace, Ph.D, Queens University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html From owner-repertoires@net.bio.net Wed Dec 11 22:00:00 1996 Message-ID: <32AF176E.2A38@dmi.net> Date: Wed, 11 Dec 1996 12:19:58 -0800 From: bds Reply-To: bds@dmi.net X-Mailer: Mozilla 3.0 (Win95; I) MIME-Version: 1.0 Subject: About Money Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit Lines: 103 Newsgroups: bionet.molecules.peptides,bionet.molecules.repertoires,bionet.mycology,bionet.neuroscience,bionet.neuroscience.amyloid Path: biosci!rutgers!uwm.edu!news.cse.psu.edu!news3.cac.psu.edu!howland.erols.net!feed1.news.erols.com!insync!uunet!in3.uu.net!206.63.63.70!nwnews.wa.com!nwfocus.wa.com!camco!poweramp!news.dsource.com!205.138.220.225!206.153.247.59 Xref: biosci bionet.molecules.peptides:561 bionet.molecules.repertoires:302 bionet.mycology:5124 bionet.neuroscience:17186 bionet.neuroscience.amyloid:718 ****************************************************************************** This is the $1.00 concept explained without the hype and silly numbers! Read the following carefully and you could be joining the many thousands of Internet users who are currently earning quite large sums of money with a few hours work using their computers via the Internet! ****************************************************************************** This posting has been appearing for quite some time and has now literally got thousands of people actively involved. No doubt like me, you may have seen it before and become a little confused by the way it’s been explained. However, I personally have never believed in a so called “Free Lunch” and have always worked hard to support my family. But this idea is so simple involving a modest $5.00 investment that I simply had to try it. With so many people involved I became convinced that I too could benefit. And, as I found out, this system really does work! After about two weeks in, I’m beginning to get a reasonable and realistic return with a further understanding of just how big this concept really is. Money is coming in from all over the world! If you’re interested there are three basic steps, all of which are pretty simple. THE FIRST STEP (1). Take five sheets of paper. Write your name and address on each piece along with the words: “Please place me on your mailing list”. Take each piece of paper, put them in an envelope along with a one dollar bill inside and mail them to the five names listed below. *NOTE: By asking to be placed on each person’s mailing list you are in fact paying for a service that consists of using the Internet to advertise a business dealing with assembling a mailing list of people who are interested in working from home using their computers to generate an income. Mail to: 1. L.M. King 2639 47th Avenue, San Francisco, CA 94116 2. F. Galvez 1633 Amberwood Drive, Apt. 29, South Pasadena, CA 91030 3. M. Palmer Gilfach Goch, Blaenpenal, Aberystwyth, SY23 4TN United Kingdom 4. T. Toole Box 1138, Valemount B.C. Canada, VOE-2ZO 5. M.N. 6003 Sundown Drive, Coeur d’ Alene, ID 83814 When you have mailed your message and one dollar bill (please don’t send checks or money orders) to the above people go to: SECOND STEP (2). Remove the top name and address from the above list and insert your own in the number 5 position. This can be done simply by amending the address section with no other alterations and posting as described later, or you can retype the whole document adding information you feel may be important. HERE IS WHY THE SYSTEM IS SO SUCCESSFUL!!! As you probably are aware, the Internet is growing daily at a phenomenal rate, doubling every year. With literally millions and millions of people surfing the Net there is the potential for tremendous exposure. With nearly 20,000 Newsgroups to post to and hundreds of thousands of people dialing in to them every day, if done correctly this program can’t help but be successful. THIRD STEP (3). Post this message with your name in the number 5 slot to at least 250 newsgroups. In theory you will earn $5.00 for every 200 postings with your name at #5. Not a large sum...but wait. Each person that sent you a one dollar bill now also makes 250 postings with your name at #4. That equals about $50.00 to you. Then your 50 new agents each post to 250 newsgroups with you at #3. That’s 12,500 postings which generates about $500.00 to you. These next 500 agents make 125,000 postings with you at #2 which earns about $10,000. Finally about 5,000 agents again make postings to 250 newsgroups which would equate out to approximately $50,000 before your name drops off the list! This sounds like pie in the sky, but the numbers add up, and with over 40 million people on the Internet...it works! ****TIP*** For a better return post to more than 250 newsgroups initially. When your name drops off a list simply access another message from a newsgroup and start the process over again. GENERAL STEPS ON AUTOMATING THE PROCESS: Make any necessary changes to this article as explained in step (2) and when you’re done save it to your word processor. Then click on Copy. Next, locate the newsgroups you intend to post to (Netscape 3.0 is terrific for this because you can highlight dozens of newsgroups all at once, enabling you to distribute your message to 1,000s of locations in less than an hour or two). Highlight all the newsgroups you want to post to, which is done by holding down CTRL while clicking your left mouse button. This way you can select multiple newsgroups in one go. Then after highlighting the newsgroups, click on “To News”. Place a sensible title in the “Subject” location, click on the text section, go to the Edit menu and click “paste” Click on send...and that’s it. Repeat the process over and over again be selecting further newsgroups in multiples of 10s, but try to be selective with the groups by posting to high volume locations, and don’t choose a subject that appears too flashy, as this will only put people off. This is an honest and legitimate way of making a reasonable amount of money on a regular basis, but only if your message is clearly understood by others. *NOTE: This system is based on everyone being honest. It’s all too tempting not to send out the initial $5.00, but if you don’t, you won’t be successful. THIS SYSTEM REALLY WORKS! Give it a try...you won’t be disappointed. From owner-repertoires@net.bio.net Thu Dec 12 22:00:00 1996 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed1.bbnplanet.com!news.bbnplanet.com!cpk-news-hub1.bbnplanet.com!www.nntp.primenet.com!nntp.primenet.com!usenet.eel.ufl.edu!warwick!lyra.csx.cam.ac.uk!daresbury!not-for-mail From: Andrew Wallace Newsgroups: bionet.molecules.repertoires Subject: Re: Molreps FAQ for December 1996 Date: 12 Dec 1996 20:39:33 -0000 Lines: 26 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <58pqi5$h5h@mserv1.dl.ac.uk> Original-Sender: awallace@uk.ac.qub MIME-Version: 1.0 X-Authentication: none Read-Receipt-To: Andrew Wallace Original-To: "D. KIM" On Thu, 12 Dec 1996 12:08:27 -0700 (MST) "D. KIM" wrote: > DR. Wallace: > > Under the heading "PCR Methods", do you intend to include a discussion on > error-prone PCR and DNA Shuffling mutagenesis? thank you for maintaining > this FAQ and list. Sure, just as long as someone (like yourself, Daniel, for example?) can provide me with some information, since I know nothing about it. How about you, Gerlind? Are you listening, you of the "wriggle" (oops, sorry, I meant wiggle) PCR? Andrew > > Daniel Kim > dkim@nmsu.edu (where the list is my only source of help, sometimes) > ------------------------------------------------------------------ Andrew Wallace, Ph.D, Queens University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html From owner-repertoires@net.bio.net Mon Dec 16 22:00:00 1996 Path: biosci!daresbury!not-for-mail From: Andrew Wallace Newsgroups: bionet.molecules.repertoires Subject: Junk mail Date: 17 Dec 1996 15:03:13 -0000 Lines: 21 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <596cnh$j04@mserv1.dl.ac.uk> Original-Sender: awallace@uk.ac.qub MIME-Version: 1.0 X-Authentication: none Read-Receipt-To: Andrew Wallace Original-To: molreps@dl.ac.uk Dear All, We seem to be having a plague of junk mail on the molreps group at the moment. I think this is because of the large number of students home from college/people off work on vacation with nothing better to do than spam the newsgroups and the problem will decline once everyone returns to work/study in the new year. Nevertheless, if people feel that there is a need for this group to be moderated (i.e. all mail is sent to one person - the moderator- for approval before it is passed on to everyone else) then I am willing to propose it to BioSci and to act as the moderator. This would cut out the junk posting for good. Andrew ------------------------------------------------------------------ Andrew Wallace, Ph.D, Queens University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html From owner-repertoires@net.bio.net Tue Dec 17 22:00:00 1996 Path: biosci!daresbury!daresbury!not-for-mail From: "Janet Clench, Library, Tel:(39 6)91093220" Newsgroups: bionet.molecules.repertoires Subject: Good tidings I bring, to you and your King, we wish you a Merry Xmas ...and a Happy New Year!! Ciao a tutti Date: 17 Dec 1996 10:34:06 -0000 Lines: 155 Sender: lpddist@mserv1.dl.ac.uk Message-ID: <595suu$37r@mserv1.dl.ac.uk> Original-To: molreps@dl.ac.uk ******************************************************** SUBJECT: Combinatorial & Phage Libraries DATE: November 18, 25, December 2, 1996 ******************************************************* Nature 384: 6604 Suppl. (NOV 7 1996) GL Verdine The combinatorial chemistry of nature 11-13 Nature 384: 6604 Suppl. (NOV 7 1996) JC Hogan Directed combinatorial chemistry 17-19 Journal of the American Chemical Society 118: 43 (OCT 30 1996) SY Stevens, BA Bunin, MJ Plunkett, PC Swanson, JA Ellman, GD Glick Non nucleic acid inhibitors of protein-DNA interactions identified through combinatorial chemistry 10650-10651 Journal of the Chemical Society - Perkin Transactions 1: 20 (OCT 21 1996) Y Yokobayashi, K Ikebukuro, S Mcniven, I Karube Directed evolution of trypsin inhibiting peptides using a genetic algorithm 2435-2437 Angewandte Chemie - International Edition in English 35: 18 (OCT 7 1996) G Jung, H Hofstetter, S Feiertag, D Stoll, O Hofstetter, KH Wiesmuller, V Schurig Cyclopeptide libraries as new chiral selectors in capillary electrophoresis 2148-2150 Journal of the American Chemical Society 118: 42 (OCT 23 1996) WKC Park, M Auer, H Jaksche, CH Wong Rapid combinatorial synthesis of aminoglycoside antibiotic mimetics: Use of a polyethylene glycol-linked amine and a neamine-derived aldehyde in multiple component condensation as a strategy for the discovery of new inhibitors of the HIV RNA Rev responsive element 10150-10155 Journal of the American Chemical Society 118: 42 (OCT 23 1996) EG Vonroedern, E Lohof, G Hessler, M Hoffmann, H Kessler Synthesis and conformational analysis of linear and cyclic peptides containing sugar amino acids 10156-10167 Journal of the American Chemical Society 118: 42 (OCT 23 1996) A Rockwell, M Melden, RA Copeland, K Hardman, CP Decicco, WF Degrado Complementarity of combinatorial chemistry and structure-based ligand design: Application to the discovery of novel inhibitors of matrix metalloproteinases 10337-10338 Journal of Organic Chemistry 61: 21 (OCT 18 1996) MF Lin, MJ Shapiro Mixture analysis in combinatorial chemistry. Application of diffusion- resolved NMR spectroscopy 7617-7619 Tetrahedron Letters 37: 43 (OCT 21 1996) S Kobayashi, M Moriwaki, R Akiyama, S Suzuki, I Hachiya Parallel synthesis using mannich-type three-component reactions and ''field synthesis'' for the construction of an amino alcohol library 7783-7786 Biochemistry 35: 44 (NOV 5 1996) CR Robinson, RT Sauer Equilibrium stability and sub-millisecond refolding of a designed single-chain arc repressor 13878-13884 FEBS Letters 396: 1 (OCT 28 1996) DM Pfistermueller, D Blaas, RA Hodits Preferential recognition of the very low-density lipoprotein receptor ligand binding site by antibodies from phage display libraries 14-20 Bioorganic & Medicinal Chemistry Letters 6: 20 (OCT 22 1996) AJ Bicknell, NW Hird Synthesis of a highly functionalized rigid template by solid-phase azomethine ylide cycloaddition 2441-2444 Journal of Immunological Methods 198: 1 (OCT 30 1996) AC Malmborg, M Duenas, M Ohlin, E Soderlind, CAK Borrebaeck Selection of binders from phage displayed antibody libraries using the BIAcore(TM) biosensor 51-57 Journal of Molecular Biology 263: 4 (NOV 8 1996) R Schier, A Mccall, GP Adams, KW Marshall, H Merritt, M Yim, RS Crawford, LM Weiner, C Marks, JD Marks Isolation of picomolar affinity Anti-c-erbB-2 single-chain Fv by molecular evolution of the complementarity determining regions in the center of the antibody binding site 551-567 Peptide Research 9: 4 (JUL-AUG 1996) JR Appel, S Muller, N Benkirane, RA Houghten, C Pinilla Highly specific, cross-reactive sequences recognized by an anti-HBsAg antibody identified from a positional scanning synthetic combinatorial library 174-182 Journal of Medicinal Chemistry 39: 22 (OCT 25 1996) JP Whitten, YF Xie, PE Erickson, TR Webb, EB Desouza, DE Grigoriadis, JR Mccarthy Rapid microscale synthesis, a new method for lead optimization using robotics and solution phase chemistry: Application to the synthesis and optimization of corticotropin-releasing factor(1) receptor antagonists 4354-4357 Journal of Medicinal Chemistry 39: 22 (OCT 25 1996) K Burgess, D Lim, SA Mousa Synthesis and solution conformation of cyclo[RGDRGD]: A cyclic peptide with selectivity for the alpha V beta 3 receptor 4520-4526 Antisense & Nucleic Acid Drug Development 6: 3 (FAL 1996) RA Stull, G Zon, FC Szoka An in vitro messenger RNA binding assay as a tool for identifying hybridization-competent antisense oligonucleotides 221-228 Journal of Theoretical Biology 182: 4 (OCT 21 1996) T Aita, Y Husimi Fitness spectrum among random mutants on Mt Fuji-type fitness landscape 469-485 Bioorganic & Medicinal Chemistry Letters 6: 19 (OCT 8 1996) YZ Bi, PG Schultz Building blocks for peptide and carbamate libraries 2299-2300 International Journal of Radiation Biology 70: 4 (OCT 1996) JEF Braun, EJ Westmijze, MVM Lafleur, J Retel Mutations induced by gamma-irradiation of M13 bacteriophages containing single-stranded DNA 459-465 Journal of Immunology 157: 8 (OCT 15 1996) M Mecchia, M Casato, R Tafi, G Filocamo, L Bonomo, M Fiorilli, R Cortese, G Migliaccio, A Nicosia Nonrheumatoid IgM in human hepatitis C virus-associated type II cryoglobulinemia recognize mimotopes of the CD4-like LAG-3 protein 3727-3736 From owner-repertoires@net.bio.net Wed Dec 18 22:00:00 1996 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed1.bbnplanet.com!news.bbnplanet.com!cpk-news-hub1.bbnplanet.com!feed1.news.erols.com!worldnet.att.net!ix.netcom.com!news From: Elizabeth Finkelstein Newsgroups: bionet.molecules.repertoires Subject: CF1 Particals in a Thylakoid Disk Date: Thu, 19 Dec 1996 04:49:53 GMT Organization: Netcom Lines: 4 Message-ID: <59ahjs$1sf@sjx-ixn10.ix.netcom.com> NNTP-Posting-Host: whp-ny5-12.ix.netcom.com X-NETCOM-Date: Wed Dec 18 8:51:08 PM PST 1996 X-Newsreader: NETCOMplete/3.2 I am looking for an approximate number of CF1 particals in a thylakoid disk. If anyone knows the answer, I would appreciate a response at doorframe@imaginetech.com as I will most likely not be able to return to this newsgroup. TIA. From owner-repertoires@net.bio.net Wed Dec 18 22:00:00 1996 Path: biosci!mcimail.com!POSTMASTER From: POSTMASTER@mcimail.com (POSTMASTER) Newsgroups: bionet.molecules.repertoires Subject: MCI Mail Message Reject Notice Date: 18 Dec 1996 16:10:37 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 45 Sender: daemon@net.bio.net Distribution: world Message-ID: <70961219001007.POSTMASTERDC1EM@MCIMAIL.COM> NNTP-Posting-Host: net.bio.net -----------------MCI Mail Internet Gateway Service Message------------------ Message Rejection Time: 00:10:05 GMT, Thu 19 DEC 1996 Status: Message COULD NOT be Posted into MCI Mail Message Information: From: EMS: Internet MBX: molreps@net.bio.net Subject: Please Help!!! Reason(s) for Rejection: Message Sender Address was invalid. 626 Data is required following the specified field 626 Data is required following the specified field FROM: EMS: MBX: Additional Message Information: ------------------------------ Received: from gatekeeper2.mcimail.com by mailgate5.mcimail.com id aa20754; 19 Dec 96 0:09 WET Received: from net.bio.net (net.bio.net [204.31.212.2]) by gatekeeper.mcimail.com (8.6.12/8.6.10) with ESMTP id AAA02580; Thu, 19 Dec 1996 00:04:59 GMT Received: (from daemon@localhost) by net.bio.net (8.6.12/8.6.6) id PAA01876; Wed, 18 Dec 1996 15:38:04 -0800 Received: (from news@localhost) by net.bio.net (8.6.12/8.6.6) id PAA01838; Wed, 18 Dec 1996 15:37:23 -0800 To: molreps@net.bio.net From: Subject: Please Help!!! Date: Wed, 18 Dec 1996 22:30:24 GMT Message-ID: <32b87074.114118265@news.inet-direct.com> NNTP-Posting-Host: 208.128.111.238 X-Newsreader: Forte Free Agent 1.1/16.230 ------------------------------------------------------------------------------ From owner-repertoires@net.bio.net Fri Dec 20 22:00:00 1996 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed1.bbnplanet.com!news.bbnplanet.com!cpk-news-hub1.bbnplanet.com!www.nntp.primenet.com!nntp.primenet.com!usenet.eel.ufl.edu!warwick!lyra.csx.cam.ac.uk!daresbury!not-for-mail From: Andrew Wallace Newsgroups: bionet.molecules.repertoires Subject: Merry Christmas and a Happy New Year! Date: 20 Dec 1996 16:15:06 -0000 Lines: 11 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <59ee2a$epb@mserv1.dl.ac.uk> Original-Sender: awallace@uk.ac.qub MIME-Version: 1.0 X-Authentication: none Read-Receipt-To: Andrew Wallace Original-To: molreps@dl.ac.uk Marry Christmas and a Happy New Year to everyone on the molecular repertoires group. May your libraries be larger and your selections more specific than ever! Andrew ------------------------------------------------------------------ Andrew Wallace, Ph.D, Queens University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html From owner-repertoires@net.bio.net Mon Dec 23 22:00:00 1996 Path: biosci!pmtg.u-bordeaux2.fr!Antoine.Vekris From: Antoine.Vekris@pmtg.u-bordeaux2.fr (Antoine VEKRIS) Newsgroups: bionet.molecules.repertoires Subject: scfv, MoAb, cell targeting. looking for... Date: 24 Dec 1996 06:47:51 -0800 Organization: Molecular pathology and gene therapy laboratory Lines: 38 Sender: daemon@net.bio.net Distribution: world Message-ID: <32BFF26A.679A@u-bordeaux2.fr> Reply-To: Antoine.Vekris@pmtg.u-bordeaux2.fr NNTP-Posting-Host: net.bio.net Searching for material and/or collaboration domain, monoclonal antibody, scfv I am developing strategies for the targeting of DNA carrying vehicles to particular cell populations. since the field of application should be finally the gene therapy of cystic fibrosis, for the feasibility studies I am interested by any commonly used cell lines. The aim is to dispose a couple of target/targeting peptide (target : extracellular domain of a membrane antigen, targeting peptide for phage display) Many variants may be interesting for the planned assays : * small peptides or scfvs will be the first choice as they are easy to handle. A collaboration scheme is to be considered if the provider is interested. * murin MoAb for which the hybridoma is available will be the second choice. In that case the scfv will be constructed and returned to the provider of the hybridoma following a period of 8 months. The specificity of interaction of the targeting peptide is an important parameter as cell lines lacking the target should be used as negative controls. I will be happy to study your propositions Best regards Antoine VEKRIS Molecular pathology and gene therapy laboratory University of Bordeaux II 146, rue Leo Saignat FR-33076 Bordeaux Cedex Phone : +33 5 57 57 13 73; fax : +33 5 56 98 33 48, e-mail : vekris@u-bordeaux2.fr From owner-repertoires@net.bio.net Fri Dec 27 22:00:00 1996 Path: biosci!internet!biosci!not-for-mail From: biohelp (BIOSCI Administrator) Newsgroups: bionet.molecules.repertoires Subject: BIOSCI/bionet miniFAQ & Fundraiser Date: 28 Dec 1996 02:00:49 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 239 Sender: daemon@net.bio.net Distribution: world Message-ID: <199612281000.CAA05429@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-repertoires@net.bio.net Mon Dec 30 22:00:00 1996 Path: biosci!daresbury!not-for-mail From: Andrew Wallace Newsgroups: bionet.molecules.repertoires Subject: New version of ISIS/Draw available for download -- supports polymers, too. Date: 31 Dec 1996 12:45:31 -0000 Lines: 56 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5ab1tb$9dh@mserv1.dl.ac.uk> Original-Sender: awallace@uk.ac.qub MIME-Version: 1.0 X-Authentication: none Read-Receipt-To: Andrew Wallace Original-To: molreps@dl.ac.uk On Mon, 30 Dec 1996 10:13:51 -0800 "David W. Hughes" wrote: > (This message is being simultaneously posted to several lists; please > forgive any duplicate messages. And please forward to any list you > feel may be interested.) > > Just in time for the New Year... > > We've placed ISIS/Draw 2.1 for Windows up on our WWW site, for free > download for academic use and/or personal use at home. This version > * supports Windows 95 and Windows NT as a 32-bit application, and > supports "tool tips", long file names, and the use of the right > mouse button. > (a 16-bit version is also available for Windows 3.1.x) > * can create 2D polymer representations, in the manner in which > polymer chemists are familiar > * makes it possible to annotate structures by attaching data to > specific portions of a structure. > > The Macintosh version of ISIS/Draw 2.1 will be available soon. > > You can obtain a copy of ISIS/Draw 2.1 for Windows (or an updated > ISIS/Draw 2.0.2 for Macintosh) at > http://www.mdli.com > or at our UK mirror site > http://www.mdli.co.uk > > Don't forget to get a copy of the updated help file, too. > > Enjoy! > > -- > > ------------------------------------------------------------------ > David Hughes > Group Manager, Material Science Marketing > MDL Information Systems, Inc. phone: (510) 895-1313, x.1432 > 14600 Catalina Street fax: (510) 352-2870 > San Leandro, CA 94577 email: davidh@mdli.com > ------------------------------------------------------------------ > > Message sent to: > ACSMEDI@LISTS.WAYNE.EDU > CHEMWEB@IC.AC.UK > CHMINF-L@IUBVM.UCS.INDIANA.EDU > MOL-DIVERSITY@LISTSERV.ARIZONA.EDU > STS-L@UTKVM1.UTK.EDU ------------------------------------------------------------------ Andrew Wallace, Ph.D, Queens University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html From owner-repertoires@net.bio.net Mon Dec 30 22:00:00 1996 Path: biosci!daresbury!not-for-mail From: Andrew Wallace Newsgroups: bionet.molecules.repertoires Subject: Additional ISIS/Draw template pages, and contest announcement! Date: 31 Dec 1996 12:58:28 -0000 Lines: 55 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5ab2lk$a2q@mserv1.dl.ac.uk> Original-Sender: awallace@uk.ac.qub MIME-Version: 1.0 X-Authentication: none Read-Receipt-To: Andrew Wallace Original-To: molreps@dl.ac.uk On Mon, 30 Dec 1996 12:03:43 -0800 "David W. Hughes" wrote: > Have you ever created a template page for ISIS/Draw that you're > particularly proud of? Think anyone else might like to use it? Maybe > there is a template page that you've always wished "someone" would > create? Please read on... > > We deliver ISIS/Draw with over 240 structure templates and 30 "template > pages" (collections of related templates you can graphically select). > You can also create and use your own custom templates and template > pages -- this makes ISIS/Draw easy to customize to your particular > needs. > > We have now created a page on our WWW site where we will post new > template pages as they become available. There are now three new > template pages available at our WWW site (http://www.mdli.com) > or at our UK mirror site (http://www.mdli.co.uk). Simply select > the "Download" button up at the top, and then select the link to > the Templates. > > ----> C O N T E S T ! ! <---- > > To celebrate the New Year, the introduction of the new Template Page > page, and to mark the release of ISIS/Draw 2.1 for Windows, we've put > together a "Template Page" contest. Prizes range from official > ISIS/Draw polo shirts to $200 in cash. For details, come to our WWW > site (or our UK mirror site), go to the template page download page, > and look for a link to the contest details. > > Have fun! > > ------------------------------------------------------------------ > David Hughes > Group Marketing Manager > MDL Information Systems, Inc. phone: (510) 895-1313, x.1432 > 14600 Catalina Street fax: (510) 352-2870 > San Leandro, CA 94577 email: davidh@mdli.com > ------------------------------------------------------------------ > This message has been sent to the following lists: > ACSMEDI@LISTS.WAYNE.EDU > CHEMWEB@IC.AC.UK > CHMINF-L@IUBVM.UCS.INDIANA.EDU > MOL-DIVERSITY@LISTSERV.ARIZONA.EDU > STS-L@UTKVM1.UTK.EDU > ISISFORUM-L@MDLI.COM > ISISDEV-L@MDLI.COM ------------------------------------------------------------------ Andrew Wallace, Ph.D, Queens University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html