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Showing 14 records out of 14 total

Categories: proteomics, (protein characterisation and function) - Software type(s): website - database
ENZYME is a repository of information relative to the nomenclature of enzymes. It is primarily based on the recommendations of the Nomenclature Committee of the International Union of Biochemistry and Molecular Biology (IUBMB) and it describes each type of characterized enzyme for which an EC (Enzyme Commission) number has been provided.
Categories: proteomics, (protein sequences and identification, protein characterisation and function, families, patterns and profiles) - Software type(s): website - database/tool
HAMAP is a system for the classification and annotation of protein sequences. It consists of a collection of manually curated family profiles for protein classification, and associated, manually created annotation rules that specify annotations that apply to family members. HAMAP is applied to bacterial, archaeal and eukaryotic proteins and used to annotate records in UniProtKB via UniProt's automatic annotation pipeline.
Categories: proteomics, (families, patterns and profiles) - Software type(s): website - tool
Scan several protein sequences or a whole genome (all ORFs) against HAMAP family profiles. Sequences that match HAMAP profiles will be annotated in the UniProtKB format by the associated annotation rules.
Categories: genomics, (characterisation/annotation), phylogeny/evolution - Software type(s): website - database
A simple access point to view gene family assignments, annotations and phylogenetic data for insect immune-related genes and gene families.
Categories: proteomics, (families, patterns and profiles) - Software type(s): website - tool
InterProScan is a tool that combines different protein signature recognition methods into one resource. The number of signature databases and their associated scanning tools, as well as the further refinement procedures, increases the complexity of the problem.
Categories: genomics, (characterisation/annotation), phylogeny/evolution - Software type(s): website - database
Catalog of eukaryotic orthologous protein-coding genes. OrthoDB explicitly delineates orthologs at each radiation along the species phylogeny. Available protein descriptors, together with Gene Ontology and InterPro attributes, serve to provide general descriptive annotations of the orthologous groups, and facilitate comprehensive database querying. Data sources include proteomes from arthropods, fungi, vertebrates and basal metazoans.
Categories: proteomics, (families, patterns and profiles), phylogeny/evolution - Software type(s): website, API - database
Along with sequence data for Pfam gene families and protein domains, PANDITplus provides access to data on protein interactions, functional and chemical pathway annotation, gene expression, and association with disease, and pre-computed estimates from evolutionary codon models.
Categories: proteomics, (families, patterns and profiles) - Software type(s): website - tool
Scans a sequence against the Pfam protein families database.
Categories: proteomics, (families, patterns and profiles) - Software type(s): website - tool
ProDom is a protein domain family database constructed automatically by clustering homologous segments. Compare your sequence with ProDom by running a Blast-P or Blast-X search against: the consensus sequence provided with the ProDom families or the multiple alignments provided with each ProDom family. ProDom-CG (Complete Genomes) and ProDom-SG (Structural Genomics Candidate Search) can also be searched.
Categories: proteomics, (families, patterns and profiles) - Software type(s): website - database
PROSITE consists of documentation entries describing protein domains, families and functional sites as well as associated patterns and profiles to identify them.
Categories: proteomics, (families, patterns and profiles) - Software type(s): website - tool
Use the SUPERFAMILY database of structural and functional annotation to provide structural (and hence implied functional) assignments to protein sequences primarily at the SCOP superfamily level. A superfamily contains all proteins for which there is structural evidence of a common evolutionary ancestor. This service offers sophisticated and expertly chosen remote homology detection.
Categories: families, patterns and profiles - Software type(s): website - tool
Assign SCOP domains to your sequences using the SUPERFAMILY hidden Markov models
Categories: proteomics, (protein sequences and identification, protein characterisation and function, similarity search/alignment) - Software type(s): website - database
The UniProt Knowledgebase (UniProtKB) is the central hub for the collection of functional information on proteins with accurate, consistent and rich annotation. It consists of: UniProtKB/Swiss-Prot (manually-annotated records and curator-evaluated computational analysis) and UniProtKB/TrEMBL (computationally analyzed records awaiting manual annotation).
Categories: proteomics, (protein sequences and identification, protein characterisation and function, post-translational modification, protein-protein interaction) - Software type(s): website - database
UniProtKB/Swiss-Prot is the manually annotated component of UniProtKB. It contains manually-annotated (reviewed) records with information extracted from the literature and curator-evaluated computational analysis.