We are deeply saddened by the passing of Amos Bairoch (1957–2025), the creator of PROSITE. We wish to dedicate our latest paper, published shortly before his death, to him. He will always be a source of inspiration to us.
Our deepest condolences go out to his family and friends, and to all those who had the privilege of working with him. Rest in peace, Amos. Your work will live on long after you are gone.

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
HAMAP-Scan - Scans several protein sequences or a whole genome against HAMAP profiles
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)