EpiDOCK: A molecular docking-based tool for MHC class II binding prediction

Protein Engineering, Design and Selection

Volumn 26, Issue 10, 2013, Pages 631-634

  Atanasova, Mariyana ^a   Patronov, Atanas ^a   Dimitrov, Ivan ^a   Flower, Darren R ^b   Doytchinova, Irini ^a  

^a MEDICAL UNIVERSITY OF SOFIA   (Bulgaria)

^b ASTON UNIVERSITY   (United Kingdom)

Author keywords

docking; MHC class II binding prediction; peptide vaccines; quantitative matrices

Indexed keywords

CLASS II; HUMAN LEUKOCYTE ANTIGEN; MAJOR HISTOCOMPATIBILITY COMPLEX; OVERALL ACCURACIES; PEPTIDE VACCINES; QUANTITATIVE MATRICES; STRUCTURE-BASED; T-CELL EPITOPES;

DOCKING; FORECASTING; PEPTIDES; T-CELLS; VACCINES;

BINDERS;

HLA DP ANTIGEN; HLA DQ ANTIGEN; HLA DR ANTIGEN; MAJOR HISTOCOMPATIBILITY ANTIGEN CLASS 2;

ACCURACY; ALLELE; ARTICLE; COMPUTER PROGRAM; EPIDOCK; MOLECULAR DOCKING; PREDICTION; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN BINDING; PROTEIN STRUCTURE;

DOCKING; MHC CLASS II BINDING PREDICTION; PEPTIDE VACCINES; QUANTITATIVE MATRICES;

ALLELES; COMPUTATIONAL BIOLOGY; HISTOCOMPATIBILITY ANTIGENS CLASS II; HUMANS; INTERNET; MOLECULAR DOCKING SIMULATION; PROTEIN CONFORMATION; REPRODUCIBILITY OF RESULTS; VACCINES;

EID: 84885003859     PISSN: 17410126     EISSN: 17410134     Source Type: Journal    
DOI: 10.1093/protein/gzt018     Document Type: Article

References (15)

1. Andreatta, M. and Nielsen, M. (2012) Immunology, 136, 306-311.
2. Atanasova, M., Dimitrov, I., Flower, D.R. and Doytchinova, I. (2011) Mol. Inform., 30, 368-375.
3. Bradley, A.P. (1997) Pattern Recognit., 30, 1145-1159.
4. Doytchinova, I., Petkov, P., Dimitrov, I., Atanasova, M. and Flower, D.R. (2011) Protein Sci., 20, 1918-1928.
5. Janeway, C.A., Travers, P., Walport, M. and Capra, J.D. (1999) In Janeway, C.A., Travers, P., Walport, M. and Capra, J.D. (eds), Immunobiology: The Immune System in Health and Disease. 4th ed. Elsevier, London, pp. 78-193.
6. Jones, G., Willett, P., Glen, R.C., Leach, A.R. and Taylor, R. (1997) J. Mol. Biol., 267, 727-748.
7. Khan, J.M. and Ranganathan, S. (2010) Immunome Res., 6(Suppl 1), S2.
8. Lin, H.H., Zhang, G.L., Tongchusak, S., Reinherz, E.L. and Brusic, V. (2008) BMC Bioinformatics, 9, S22.
9. Morris, G.M., Huey, R., Lindstrom, W., Sanner, M.F., Belew, R.K., Goodsell, D.S. and Olson, A.J. (2009) J. Comput. Chem., 30, 2785-2791.
10. Patronov, A. and Doytchinova, I. (2013) Open Biol., 3, 120139.
11. Patronov, A., Dimitrov, I., Flower, D.R. and Doytchinova, I. (2011) BMC Struct. Biol., 11, 32.
12. Patronov, A., Dimitrov, I., Flower, D.R. and Doytchinova, I. (2012) BMC Struct. Biol., 12, 20.
13. Patronov, A., Salamanova, E., Dimitrov, I., Flower, D.R. and Doytchinova, I. (2013) Curr. Comput. Aided Drug Des., in press.
14. Robinson, J., Mistry, K., McWilliam, H., Lopez, R., Parham, P. and Marsh, S.G.E. (2011) Nucleic Acids Res., 39(Suppl 1), D1171-D1176.
15. Vita, R., Zarebski, L., Greenbaum, J.A., Emami, H., Hoof, I., Salimi, N., Damle, R., Sette, A. and Peters, B. (2010). Nucleic Acids Res., 38(Database issue), D854-D862.