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Links tagged with 'antigen receptors'

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FASTA ProgramsTool Content

http://fasta.bioch.virginia.edu/

Sequence Comparison > Similarity Searching

Sequence retrieval and comparison tools.

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tagsadrenergic receptors algorithms amino acid sequence animals antigen receptors base sequence dna eye proteins gene library globins humans information systems molecular sequence data nucleic acid sequence homology peptides proteins rod opsins transforming growth factors

IEDB-3DDatabase Content

http://www.iedb.org

Protein > Databases

IEDB-3D is the 3D structural component of the Immune Epitope Database (IEDB). IEDB-3D catalogs B- and T-cell epitopes and Major Histocompatibility Complex (MHC) ligands for which 3D structures of complexes with antibodies, T-cell receptors or MHC molecules are available in the Protein Data Bank (PDB). Journal articles that are primary citations of PDB structures and that define immune epitopes are curated within IEDB along with accompanying functional assays and immunologically relevant information. For each curated structure, IEDB-3D provides calculated data on intermolecular contacts and interface areas and includes an application, EpitopeViewer, to visualize the structures. IEDB-3D is fully embedded within IEDB, thus allowing structural data, both curated and calculated, and all accompanying information to be queried using multiple search interfaces. These include queries for epitopes recognized in different pathogens, eliciting different functional immune responses, and recognized by different components of the immune system.

NAR Database Issue 2011
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tagsantibodies antigen receptors b-lymphocyte epitopes epitopes histocompatibility antigens ligands protein conformation protein databases t-lymphocyte epitopes

IMGT/3DstructureDatabase Content

http://www.imgt.org/3Dstructure-DB/

Protein > Databases

IMGT/3Dstructure-DB is the three-dimensional (3D) structure database of IMGT, the international ImMunoGenetics information system for immunogenetics and immunoinformatics. IMGT/3Dstructure-DB contains 3D structures of immunoglobulins (IG) or antibodies, T cell receptors (TR), major histocompatibility complex (MHC) proteins, antigen receptor/antigen complexes (IG/Ag, TR/peptide/MHC) of vertebrates; 3D structures of related proteins of the immune system (RPI) of vertebrates and invertebrates, belonging to the immunoglobulin and MHC superfamilies (IgSF and MhcSF, respectively) and found in complexes with IG, TR or MHC. IMGT/3Dstructure-DB data are annotated according to the IMGT criteria, using IMGT/DomainGapAlign, and based on the IMGT-ONTOLOGY concepts and axioms. IMGT/3Dstructure-DB provides IMGT gene and allele identification (CLASSIFICATION), region and domain delimitations (DESCRIPTION), amino acid positions according to the IMGT unique numbering (NUMEROTATION) that are used in IMGT/3Dstructure-DB cards, results of contact analysis and renumbered flat files. In its Web version, the IMGT/DomainGapAlign tool analyses amino acid sequences, per domain.

NAR Database Issue 2010
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tagsalleles amino acid sequence amino acid sequence homology animals antigen receptors computational biology genetic databases humans immunoglobulins major histocompatibility complex molecular sequence data protein databases tertiary protein structure

PAComplexTool Content

http://PAcomplex.life.nctu.edu.tw

Protein > Interactions, Pathways, Enzymes

PAComplex is a web server for inferring peptide antigen families and binding models from T-cell receptor-peptide MHC complexes.

NAR Web Server Issue 2011
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tagsantigen receptors histocompatibility antigens class i molecular models mycoplasma pneumonia peptides pol gene products ribosomal proteins

PatchDockTool Content

http://bioinfo3d.cs.tau.ac.il/PatchDock/

Protein > Molecular Dynamics and Docking

PatchDock is an algorithm for molecular docking. The input is two molecules of any type: proteins, DNA, peptides, drugs. The output is a list of potential complexes sorted by shape complementarity criteria.

NAR Web Server Issue 2005
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tagsalgorithms alpha-amylases antibodies antigen receptors bacterial proteins binding sites capsid proteins computational biology exotoxins influenza virus hemagglutinin glycoproteins ligands macromolecular substances membrane proteins molecular models multiprotein complexes phosphoenolpyruvate sugar phosphotransferase system protein conformation protein interaction mapping protein-serine-threonine kinases proteins secondary protein structure viral antigens

PolyPhredTool Content

http://droog.gs.washington.edu/polyphred/

DNA > Sequence Polymorphisms
Human Genome > Sequence Polymorphisms

UNIX-based tool for sequence trace based genotyping; integrated with Phred/Phrap/Consed (see DNA -- Contig Assembly); free for non-commercial use.

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tagsanimals antigen receptors automation base sequence dna dna sequence analysis fluorescence genotype humans molecular sequence data