About MPID-T:The MHC-Peptide Interaction Database version T (MPID-T) is a new generation database for sequence-structure-function information on T cell receptor/peptide/MHC interactions. It contains all structures of TcR/pMHC and pMHC complexes, with emphasis on the structural characterization of these complexes. MPID-T will facilitate the development of algorithms to predict whether a peptide sequence will bind to a specific MHC allele. The database has been populated with the data from the Protein Data Bank(PDB). The data from the PDB is manually verified and classified, after which each structure is analysed for atomic interactions relevant to MHC-Peptide complex. The intermolecular hydrogen bonds, gap volume and gap index are pre-computed using the program SURFNET and the Interface area due to complex formation is calculated based on accessible surface area calculation performed by the NACCESS program. Schematic diagrams of the MHC-Peptide interactions based on the plotting program LIGPLOT are also available.The Peptide consensus pattern available in MPID-T are generated using the Program WEBLOGO. MPID-T contains 187 entries from three MHC sources (Human:110, Murine:74 and Rat:3), spanning 40 alleles. Class I MHC-Peptide complexes number 141 while 46 structures are from class II MHC. On the whole, 134 entries are non-redundant. (100 from class I and 34 from class II MHC-Peptide complexes). TcR/pMHC complexes number 16 (13 from class I and 3 from class II). Included in this version are non-classical structures and complexes with non-standard residues. To view distribution graphically [click here]. To visualize the structural alignment you need Chime or Java plug-in for Jmol. MPID-T is best viewed using Internet Explorer. MPID-T Team:MPID-T is proudly brought to you by |