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Title: Towards the MHC-peptide combinatorics
Authors: Kangueane, P.
Sakharkar, M.K. 
Kolatkar, P.R. 
Ren, E.C. 
Keywords: Binding pattern
Binding value
MHC-peptide interface
Residue preference
Issue Date: 2001
Citation: Kangueane, P., Sakharkar, M.K., Kolatkar, P.R., Ren, E.C. (2001). Towards the MHC-peptide combinatorics. Human Immunology 62 (5) : 539-556. ScholarBank@NUS Repository.
Abstract: The exponentially increased sequence information on major histocompatibility complex (MHC) alleles points to the existence of a high degree of polymorphism within them. To understand the functional consequences of MHC alleles, 36 nonredundant MHC-peptide complexes in the protein data bank (PDB) were examined. Induced fit molecular recognition patterns such as those in MHC-peptide complexes are governed by numerous rules. The 36 complexes were clustered into 19 subgroups based on allele specificity and peptide length. The subgroups were further analyzed for identifying common features in MHC-peptide binding pattern. The four major observations made during the investigation were: (1) the positional preference of peptide residues defined by percentage burial upon complex formation is shown for all the 19 subgroups and the burial profiles within entries in a given subgroup are found to be similar; (2) in class I specific 8- and 9-mer peptides, the fourth residue is consistently solvent exposed, however this observation is not consistent in class I specific 10-mer peptides; (3) an anchor-shift in positional preference is observed towards the C terminal as the peptide length increases in class II specific peptides; and (4) peptide backbone atoms are proportionately dominant at the MHC-peptide interface. © American Society for Histocompatibility and Immunogenetics, 2001. Published by Elsevier Science Inc.
Source Title: Human Immunology
ISSN: 01988859
DOI: 10.1016/S0198-8859(01)00219-1
Appears in Collections:Staff Publications

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