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.: Bioinformatics Resource Centers
.: Databases: DNA and RNA
Organisms and Genomes
Genes and Proteins
.: Tools: Sequence Analysis / Comparisons
Analysis of Genes and Coding Regions
Metabolic Analysis
Domain Motif Analysis
Structure Analysis
.: Programming

Domain Motif Analysis

Pfam - Pfam is a large collection of multiple sequence alignments and hidden Markov models covering many common protein families. Pfam version 16.0 (November 2004) contains alignments and models for 7677 protein families, based on the Swissprot 44.5 and SP-TrEMBL 27.5 protein sequence databases.

BLOCKS - at the Fred Hutchinson Cancer Research Center Blocks WWW server. Search your protein or DNA sequence against a Blocks Database.

eBLOCKS - database of protein sequence blocks -- ungapped alignments of highly conserved regions among a protein family or superfamily.

eMOTIF - collection of more than 170000 highly specific and sensitive protein sequence motifs representing conserved biochemical properties and biological functions.

PROSITE - The ScanProsite tool allows to scan protein sequence(s) (either from Swiss-Prot or TrEMBL or provided by the user) for the occurrence of patterns, profiles and rules (motifs) stored in the PROSITE database, or to search protein database(s) for hits by specific motif(s). The program PRATT can be used to generate your own patterns.

ProDom - The Protein Domain Database. Is a comprehensive set of protein domain families automatically generated from the SWISS-PROT and TrEMBL sequence databases.

PatScan - PatScan is a pattern matcher which searches protein or nucleotide (DNA, RNA, tRNA etc.) sequence archives for instances of a pattern which you input.
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