tool for identification of motifs
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Answer:
genetics, a sequence motif is a nucleotide or amino-acid sequence pattern that is widespread and has, or is conjectured to have, a biological significance. For proteins, a sequence motif is distinguished from a structural motif, a motif formed by the three-dimensional arrangement of amino acids which may not be adjacent.
Following are the list of tools for motif discovery:
2Dsweep -- protein annotation by secondary structure elements
Perform secondary structure predictions on protein sequences.
3D-footprint -- database of DNA-binding protein structures
Find binding specificity information about DNA-protein complexes.
3D-footprint: DNA-binding protein database
Find information about the binding specificity of DNA-binding proteins.
3D-partner -- a web server to infer interacting partners and binding models
Predict interacting partners and binding models.
3MOTIF -- a protein structure visualization system for conserved sequence motifs
Use this web-based sequence motif visualization system to display sequence motif information in its appropriate three-dimensional (3D) context.
AFAWE -- Automatic functional annotation in a distributed Web Services Environment
Protein function prediction and annotation in an integrated environment powered by web service.
ANCHOR -- Prediction of Protein Binding Regions in Disordered Proteins
Find information about protein binding.
ANNIE -- ANNotation and Interpretation Environment for Protein Sequences
Use to predict function from de novo protein sequences.
Active Sequences Collection (ASC) database -- A new tool to assign functions to protein sequences
Search for short active protein sequences with demonstrated biological activities.
Blocks -- Ungapped segments in conserved protein sequences
Search for ungapped segments corresponding to the most highly conserved regions of proteins.
CASTp -- computed atlas of surface topography of proteins with structural and topographical mapping of functionally annotated residues
Identify and measure surface accessible pockets as well as interior inaccessible cavities, for proteins and other molecules.
CSA -- The Catalytic Site Atlas
To search for catalytic residue annotation for enzymes in the Protein Data Bank.
ConFunc -- Conserved residue Protein Function Prediction Server
Predict protein function using Gene Ontology.
ConSurf-DB -- evolutionary conservation profiles of protein structures database
Automatically calculate evolutionary conservation scores of key amino acid residues and map them on protein structures.
DBAli -- A Database of Structure Alignments
Mine the protein structure space.
DILIMOT -- discovery of linear motifs in proteins
Predict short linear motifs (3-8 residues) in a set of protein sequences.
Dasty2 -- an Ajax protein DAS client
A web client for visualizing protein sequence feature information using DAS.
DomainSweep -- protein annotation by domain analysis
Identify the domain architecture within a protein sequence.
E1DS -- catalytic site prediction based on 1D signatures of concurrent conservation
Predict enzyme catalytic site.
ELM -- Eukarotic Linear Motif Resource
Predict functional sites in eukaryotic proteins.
EXPASY Proteome Tools Collection
Use a collection of tools for protein analyses.
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