PROSITE

PROSITE provides a database of conserved protein patterns, profiles, and ProRules for identifying and annotating protein domains, families, and functional sites in protein sequences.

Key Features:

• Patterns: A collection of 1,308 consensus sequence patterns for recognition of conserved motifs and functional sites.
• Profiles: A set of 1,039 profiles for detecting protein families and domains across sequence space.
• ProRules integration: 1,041 ProRules that add rule-based context to signatures to increase specificity and highlight functionally or structurally critical amino acids.
• PROSITE signatures: Use of signature-based detection (patterns and profiles) for annotation of protein features.
• UniProtKB/Swiss-Prot annotation: Application of PROSITE signatures and ProRules to annotate domains and features within UniProtKB/Swiss-Prot entries.
• Whole-proteome annotation: Support for comprehensive whole-proteome annotation enabled by developments in the resource.
• Filtering options: A suite of filtering options to tailor searches and refine annotations.
• Release statistics: Release 20.85 (30 August 2012) reporting the above counts of patterns, profiles, and ProRules.

Scientific Applications:

• Domain and family annotation: Identification and classification of protein domains and families in sequence datasets.
• Functional site identification: Detection of conserved functional residues and motifs within proteins.
• Whole-proteome analysis: Genome-scale annotation of protein features across complete proteomes.
• Protein analysis and functional genomics: Support for studies linking sequence features to protein function and genomics analyses.
• Targeted searches: Focused identification of proteins or sites using signature matches combined with filtering rules.

Methodology:

Annotation is performed by applying PROSITE signatures (patterns and profiles) in conjunction with ProRules to UniProtKB/Swiss-Prot entries, with support for whole-proteome annotation and configurable filtering options.