PROSITE Links

[Databases of protein domains and families]   [Pattern and profile searches]

Databases of protein domains and families

PROSITE - Database of protein families and domains UniProt - the universal protein resource (includes UniProtKB, UniRef, UniParc) Around UniProtKB - links to related databases and portals HAMAP - UniProtKB family classification and annotation SwissVar - Portal to human UniProtKB/Swiss-Prot variants implied in diseases ViralZone - Portal to viral UniProtKB/Swiss-Prot entries CPAP - Chordata (includes human) Protein Annotation Program PPAP - Plant Protein Annotation Program Tox-Prot - Animal toxin annotation program neXtProt - A knowledge platform dedicated to human proteins Swiss Human Plasma protein dataset - Novartis/Geneprot MicroProt2 dataset from Human Plasma samples NCBI protein resources InterPro - Integrated database of protein domains and functional sites CDD - The Conserved Domain Database: A resource for the annotation of functional units in proteins CATH / Gene3D - A resource that provides information on the evolutionary relationships of protein domains Panther - Functional classification system of genes Pfam - Database of protein families (HMM derived) PIRSF - Protein classification system based on whole proteins SMART - Simple Modular (protein) Architecture Research Tool SUPERFAMILY - Database of profile HMMs representing all proteins of known structure STRING - Search Tool for the Retrieval of Interacting Genes/Proteins TIGRFAMs - Database of protein families, featuring curated multiple sequence alignments, hidden Markov models (HMMs) and annotation DIP - Database of Interacting Proteins MINT - Molecular INTeraction database HPRD - Human Protein Reference Database IntAct - Database system and analysis tools for protein interaction data BioGRID - Biological General Repository for Interaction Dataset PPI - The Jena Protein-Protein Interaction Website

Pattern and profile searches

ScanProsite - Scan proteins for matches against the PROSITE collection of motifs as well as against your own patterns InterPro Scan - Integrated search in PROSITE, Pfam, HAMAP, PRINTS and the other InterPro databases Hits - Relationships between protein sequences and motifs HAMAP-Scan - Scans several protein sequences or a whole genome against HAMAP profiles MotifScan - Scans a sequence against several protein profile databases (including PROSITE) HMMER - Biosequence analysis using profile hidden Markov Models SUPERFAMILY Sequence Search - Assign SCOP domains to your sequences using the SUPERFAMILY hidden Markov models 3of5ComplexPatternSearch - e.g. to search a sequence with a motif with 3 basic AA in 5 positions ELM - Eukaryotic Linear Motif resource for scanning a sequence against functional site motifs PRATT - Interactively generates conserved patterns from a series of unaligned proteins PPSEARCH - Scans a sequence against all PROSITE patterns (allows a graphical output) (at EBI) PATTINPROT - Scans a protein sequence or a protein database against one or several pattern(s) (at PBIL) SMART - Simple Modular Architecture Research Tool (at EMBL)