Tools and resources for identifying protein families, domains and motifs

Genome Biology

Volumn 3, Issue 1, 2002, Pages

  Mulder, Nicola J ^a   Apweiler, Rolf ^a  

^a WELLCOME TRUST SANGER INSTITUTE   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID SEQUENCE; ARTICLE; DATA BASE; GENE SEQUENCE; HUMAN; INFORMATION RETRIEVAL; INTERNET; METHODOLOGY; PROTEIN DOMAIN; PROTEIN FAMILY; PROTEIN MOTIF; SEQUENCE ANALYSIS; SEQUENCE DATABASE;

AMINO ACID MOTIFS; BINDING SITES; DATABASES, PROTEIN; INTERNET; PROTEINS; SEQUENCE ALIGNMENT; SOFTWARE;

EID: 0036151083     PISSN: 14656906     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (55)

1. Issues in predicting protein function from sequence
2. The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000
3. Protein Information Resource: A community resource for expert annotation of protein data
4. GenBank
5. Profile analysis
6. The PROSITE database, its status in 1999
7. PRINTS-S: The database formerly known as PRINTS
8. The Pfam Protein Families Database
9. SMART: Identification and annotation of domains from signalling and extracellular protein sequences
10. TIGRFAMs: A protein family resource for the functional identification of proteins
11. Increased coverage of protein families with the blocks database servers
12. ProDom and ProDom-CG: Tools for protein domain analysis and whole genome comparisons
13. Automated protein database classification: I. Integration of compositional similarity search, local similarity search and multiple sequence alignment
14. Automated protein database classification: II. Delineation of domain boundaries from sequence similarities
15. PIR-ALN: A database of protein sequence alignments
16. ProClass protein family database
17. ProtoMap: Automatic classification of protein sequences and hierarchy of protein families
18. The SYSTERS protein sequence cluster set
19. CluSTr: A database of clusters of SWISS-PROT+TrEMBL proteins
20. A flexible motif search technique based on generalized profiles
21. Biological Sequence Analysis: Probabilistic Models of Proteins and Nucleic Acids
22. Profile hidden Markov models for biological sequence analysis
23. Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
24. Whole genome protein domain analysis using a new method for domain clustering
25. Automated assembly of protein blocks for database searching
26. Searching databases of conserved sequence regions by aligning protein multiple-alignments
27. MetaFam: A unified classification of protein families. I. Overview and statistics
28. iProClass: An integrated, comprehensive and annotated protein classification database
29. Database resources of the National Center for Biotechnology Information
30. The InterPro database, an integrated documentation resource for protein families, domains and functional sites
31. The SBASE protein domain library, release 8.0: A collection of annotated protein sequence segments
32. Multiple sequence alignment with hierarchical clustering
33. InterProScan - An integration platform for the signature-recognition methods in InterPro