PMID- 24475163
OWN - NLM
STAT- MEDLINE
DCOM- 20141112
LR  - 20240320
IS  - 1932-6203 (Electronic)
IS  - 1932-6203 (Linking)
VI  - 9
IP  - 1
DP  - 2014
TI  - Clustering HLA class I superfamilies using structural interaction patterns.
PG  - e86655
LID - 10.1371/journal.pone.0086655 [doi]
LID - e86655
AB  - Human leukocyte antigen (HLA) class I molecules are critical components of the 
      cell-mediated immune system that bind and present intracellular antigenic 
      peptides to CD8(+) T cell receptors. To understand the interaction mechanism 
      underlying human leukocyte antigen (HLA) class I specificity in detail, we 
      studied the structural interaction characteristics of 16,393 nonameric peptides 
      binding to 58 HLA-A and -B molecules. Our analysis showed for the first time that 
      HLA-peptide intermolecular bonding patterns vary among different alleles and may 
      be grouped in a superfamily dependent manner. Through the use of these HLA class 
      I 'fingerprints', a high resolution HLA class I superfamily classification schema 
      was developed. This classification is capable of separating HLA alleles into well 
      resolved, non-overlapping clusters, which is consistent with known HLA 
      superfamily definitions. Such structural interaction approach serves as an 
      excellent alternative to the traditional methods of HLA superfamily definitions 
      that use peptide binding motifs or receptor information, and will help identify 
      appropriate antigens suitable for broad-based subunit vaccine design.
FAU - Harjanto, Sumitro
AU  - Harjanto S
AD  - Duke-National University of Singapore Graduate Medical School, Singapore, 
      Singapore.
FAU - Ng, Lisa F P
AU  - Ng LF
AD  - Department of Biochemistry, Yong Loo Lin School of Medicine, National University 
      of Singapore, Singapore, Singapore ; Singapore Immunology Network, Agency for 
      Science, Technology and Research, Singapore, Singapore.
FAU - Tong, Joo Chuan
AU  - Tong JC
AD  - Department of Biochemistry, Yong Loo Lin School of Medicine, National University 
      of Singapore, Singapore, Singapore ; Institute of High Performance Computing, 
      Agency for Science, Technology and Research, Singapore, Singapore.
LA  - eng
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
DEP - 20140127
PL  - United States
TA  - PLoS One
JT  - PloS one
JID - 101285081
RN  - 0 (Epitopes, T-Lymphocyte)
RN  - 0 (HLA-A Antigens)
RN  - 0 (HLA-B Antigens)
RN  - 0 (Peptides)
SB  - IM
MH  - Amino Acid Sequence
MH  - Cluster Analysis
MH  - Computational Biology
MH  - Epitopes, T-Lymphocyte/metabolism
MH  - HLA-A Antigens/*classification/genetics/*metabolism
MH  - HLA-B Antigens/*classification/genetics/*metabolism
MH  - Humans
MH  - Molecular Sequence Data
MH  - Multigene Family/*genetics
MH  - Peptides/*metabolism
MH  - Protein Binding
PMC - PMC3903569
COIS- Competing Interests: The authors have declared that no competing interests exist.
EDAT- 2014/01/30 06:00
MHDA- 2014/11/13 06:00
PMCR- 2014/01/27
CRDT- 2014/01/30 06:00
PHST- 2013/09/01 00:00 [received]
PHST- 2013/12/15 00:00 [accepted]
PHST- 2014/01/30 06:00 [entrez]
PHST- 2014/01/30 06:00 [pubmed]
PHST- 2014/11/13 06:00 [medline]
PHST- 2014/01/27 00:00 [pmc-release]
AID - PONE-D-13-35932 [pii]
AID - 10.1371/journal.pone.0086655 [doi]
PST - epublish
SO  - PLoS One. 2014 Jan 27;9(1):e86655. doi: 10.1371/journal.pone.0086655. eCollection 
      2014.