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Showing 11 records out of 11 total

Categories: proteomics, glycomics - Software type(s): website - database
CAZy is a dedicated family classification system correlating structure and molecular mechanism of carbohydrate-active enzymes. It describes the families of structurally-related catalytic and carbohydrate-binding modules (or functional domains) of enzymes that degrade, modify, or create glycosidic bonds.
Categories: proteomics, (function analysis) - 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, function analysis, sequence sites, features and motifs) - 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, (sequence sites, features and motifs) - 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), evolutionary biology - 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: genomics, (characterisation/annotation), evolutionary biology - 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, (sequence sites, features and motifs) - 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, (sequence sites, features and motifs) - 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, (sequence sites, features and motifs) - 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: proteomics, genomics, (sequence alignment), evolutionary biology - Software type(s): website - database/tool
The SwissTree project aims to provide a collection of 100 Gold Standard gene phylogenies to the scientific community. This set of reference gene trees is suitable for phylogenomic databases to assess their current quality status, measure changes following new database releases and diagnose improvements subsequent to an upgrade of the analysis procedure. SwissTree is used for benchmarking at the Orthology Benchmarking web service.
Categories: proteomics, (protein sequences and identification, function analysis, protein modifications, protein interactions) - Software type(s): website - database
UniProtKB/Swiss-Prot is the manually annotated component of UniProtKB (produced by the UniProt consortium). It contains manually-annotated (reviewed) records with information extracted from the literature and curator-evaluated computational analysis.