Literature DB >> 10592177

The protein information resource (PIR).

W C Barker1, J S Garavelli, H Huang, P B McGarvey, B C Orcutt, G Y Srinivasarao, C Xiao, L S Yeh, R S Ledley, J F Janda, F Pfeiffer, H W Mewes, A Tsugita, C Wu.   

Abstract

The Protein Information Resource (PIR) produces the largest, most comprehensive, annotated protein sequence database in the public domain, the PIR-International Protein Sequence Database, in collaboration with the Munich Information Center for Protein Sequences (MIPS) and the Japan International Protein Sequence Database (JIPID). The expanded PIR WWW site allows sequence similarity and text searching of the Protein Sequence Database and auxiliary databases. Several new web-based search engines combine searches of sequence similarity and database annotation to facilitate the analysis and functional identification of proteins. New capabilities for searching the PIR sequence databases include annotation-sorted search, domain search, combined global and domain search, and interactive text searches. The PIR-International databases and search tools are accessible on the PIR WWW site at http://pir.georgetown.edu and at the MIPS WWW site at http://www. mips.biochem.mpg.de. The PIR-International Protein Sequence Database and other files are also available by FTP.

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Year:  2000        PMID: 10592177      PMCID: PMC102418          DOI: 10.1093/nar/28.1.41

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN: 0305-1048            Impact factor:   16.971


  13 in total

1.  The RESID database of protein structure modifications: 2000 update.

Authors:  J S Garavelli
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

2.  ProClass protein family database.

Authors:  H Huang; C Xiao; C H Wu
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

3.  NRL-3D: a sequence-structure database derived from the protein data bank (PDB) and searchable within the PIR environment.

Authors:  N Pattabiraman; K Namboodiri; A Lowrey; B P Gaber
Journal:  Protein Seq Data Anal       Date:  1990-10

4.  MIPS: a database for genomes and protein sequences.

Authors:  H W Mewes; D Frishman; C Gruber; B Geier; D Haase; A Kaps; K Lemcke; G Mannhaupt; F Pfeiffer; C Schüller; S Stocker; B Weil
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

5.  The origin and evolution of protein superfamilies.

Authors:  M O Dayhoff
Journal:  Fed Proc       Date:  1976-08

6.  Improved tools for biological sequence comparison.

Authors:  W R Pearson; D J Lipman
Journal:  Proc Natl Acad Sci U S A       Date:  1988-04       Impact factor: 11.205

7.  The PIR-International databases.

Authors:  W C Barker; D G George; H W Mewes; F Pfeiffer; A Tsugita
Journal:  Nucleic Acids Res       Date:  1993-07-01       Impact factor: 16.971

8.  CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice.

Authors:  J D Thompson; D G Higgins; T J Gibson
Journal:  Nucleic Acids Res       Date:  1994-11-11       Impact factor: 16.971

9.  PIR-ALN: a database of protein sequence alignments.

Authors:  G Y Srinivasarao; L S Yeh; C R Marzec; B C Orcutt; W C Barker
Journal:  Bioinformatics       Date:  1999-05       Impact factor: 6.937

10.  The Protein Data Bank: Current Status and Future Challenges.

Authors:  Enrique E Abola; Nancy O Manning; Jaime Prilusky; David R Stampf; Joel L Sussman
Journal:  J Res Natl Inst Stand Technol       Date:  1996 May-Jun
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  37 in total

1.  The RESID database of protein structure modifications: 2000 update.

Authors:  J S Garavelli
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

2.  ProClass protein family database.

Authors:  H Huang; C Xiao; C H Wu
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

3.  The MetaFam Server: a comprehensive protein family resource.

Authors:  K A Silverstein; E Shoop; J E Johnson; A Kilian; J L Freeman; T M Kunau; I A Awad; M Mayer; E F Retzel
Journal:  Nucleic Acids Res       Date:  2001-01-01       Impact factor: 16.971

4.  The SBASE protein domain library, release 8.0: a collection of annotated protein sequence segments.

Authors:  J Murvai; K Vlahovicek; E Barta; S Pongor
Journal:  Nucleic Acids Res       Date:  2001-01-01       Impact factor: 16.971

5.  MPtopo: A database of membrane protein topology.

Authors:  S Jayasinghe; K Hristova; S H White
Journal:  Protein Sci       Date:  2001-02       Impact factor: 6.725

6.  Gene ontology: tool for the unification of biology. The Gene Ontology Consortium.

Authors:  M Ashburner; C A Ball; J A Blake; D Botstein; H Butler; J M Cherry; A P Davis; K Dolinski; S S Dwight; J T Eppig; M A Harris; D P Hill; L Issel-Tarver; A Kasarskis; S Lewis; J C Matese; J E Richardson; M Ringwald; G M Rubin; G Sherlock
Journal:  Nat Genet       Date:  2000-05       Impact factor: 38.330

7.  SPINE: an integrated tracking database and data mining approach for identifying feasible targets in high-throughput structural proteomics.

Authors:  P Bertone; Y Kluger; N Lan; D Zheng; D Christendat; A Yee; A M Edwards; C H Arrowsmith; G T Montelione; M Gerstein
Journal:  Nucleic Acids Res       Date:  2001-07-01       Impact factor: 16.971

8.  ProTherm, Thermodynamic Database for Proteins and Mutants: developments in version 3.0.

Authors:  M Michael Gromiha; Hatsuho Uedaira; Jianghong An; Samuel Selvaraj; Ponraj Prabakaran; Akinori Sarai
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

9.  Prediction of protein functional domains from sequences using artificial neural networks.

Authors:  J Murvai; K Vlahovicek; C Szepesvári; S Pongor
Journal:  Genome Res       Date:  2001-08       Impact factor: 9.043

10.  Proteins of circularly permuted sequence present within the same organism: the major serine proteinase inhibitor from Capsicum annuum seeds.

Authors:  N Antcheva; A Pintar; A Patthy; A Simoncsits; E Barta; B Tchorbanov; S Pongor
Journal:  Protein Sci       Date:  2001-11       Impact factor: 6.725

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