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Showing 11 records out of 31 total
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Categories: proteomics, (families, patterns and profiles) - Software type(s): website - tool
An important problem in sequence analysis is to find patterns matching sets or subsets of sequences. This tool allows the user to discover patterns conserved in sets of unaligned protein sequences. The user can specify what kind of patterns should be searched for, and how many sequences should match a pattern to be reported. The patterns are reported using PROSITE syntax.
Categories: proteomics, (families, patterns and profiles) - Software type(s): website - tool
An important problem in sequence analysis is to find patterns matching sets or subsets of sequences.This tool allows the user to search for patterns conserved in sets of unaligned protein sequences. The user can specify what kind of patterns should be searched for, and how many sequences should match a pattern to be reported.
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, (protein structure) - Software type(s): website - tool
SCRATCH is a server for predicting protein tertiary structure and structural features. The SCRATCH software suite includes predictors for secondary structure, relative solvent accessibility, disordered regions, domains, disulfide bridges, single mutation stability, residue contacts versus average, individual residue contacts and tertiary structure.
Categories: proteomics, (families, patterns and profiles) - Software type(s): website - tool
The Simple Modular Architecture Research Tool allows the identification and annotation of genetically mobile domains and the analysis of domain architectures. Normal SMART, (against UniProtKB and stable Ensembl proteomes), and Genomic SMART, (against complete proteomes) are supported.
keywords: protein domain
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, (families, patterns and profiles) - Software type(s): website - tool
Pattern discovery on event streams of alphanumeric characters. Possible alphabet sets include nucleic acids, amino acids, etc.
keywords: protein domain
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.
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