hpvPDB: An Online Proteome Reserve for Human Papillomavirus |
Kumar, Satish
(Bioinformatics Centre and Biochemistry, Mahatma Gandhi Institute of Medical Sciences)
Jena, Lingaraja (Bioinformatics Centre and Biochemistry, Mahatma Gandhi Institute of Medical Sciences) Daf, Sangeeta (Datta Meghe Institute of Medical Sciences (Deemed University)) Mohod, Kanchan (Bioinformatics Centre and Biochemistry, Mahatma Gandhi Institute of Medical Sciences) Goyal, Peyush (Department of Biotechnology, Ministry of Science and Technology) Varma, Ashok K. (Advanced Centre for Treatment, Research and Education in Cancer) |
1 | Dereeper A, Guignon V, Blanc G, Audic S, Buffet S, Chevenet F, et al. Phylogeny.fr: robust phylogenetic analysis for the non-specialist. Nucleic Acids Res 2008;36:W465-W469. DOI ScienceOn |
2 | Myers G, Baker C, Wheeler C, Halpern A, McBride A, Doorbar J. Human papillomaviruses: a compilation and analysis of nucleic acid and amino acid sequences. Los Alamos: Theoretical Biology and Biophysics, Los Alamos National Laboratory, 1994-1997. Accessed 2013 Nov 10. Available from: http:// pave.niaid.nih.gov/lanl-archives/HPVcompintro4. html. |
3 | Tungteakkhun SS, Filippova M, Neidigh JW, Fodor N, Duerksen-Hughes PJ. The interaction between human papillomavirus type 16 and FADD is mediated by a novel E6 binding domain. J Virol 2008;82:9600-9614. DOI ScienceOn |
4 | Zheng ZM, Baker CC. Papillomavirus genome structure, expression, and post-transcriptional regulation. Front Biosci 2006;11:2286-2302. DOI ScienceOn |
5 | Gasteiger E, Hoogland C, Gattiker A, Duvaud S, Wilkins MR, Appel RD, et al. The Proteomics Protocols Handbook. Totowa: Humana Press, 2005. pp. 571-607. |
6 | Eswar N, Webb B, Marti-Renom MA, Madhusudhan MS, Eramian D, Shen MY, et al. Comparative protein structure modeling using MODELLER. Curr Protoc Protein Sci 2007; Chapter 2:Unit 2.9. |
7 | Arnold K, Bordoli L, Kopp J, Schwede T. The SWISS-MODEL workspace: a web-based environment for protein structure homology modelling. Bioinformatics 2006;22:195-201. DOI ScienceOn |
8 | Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. Basic local alignment search tool. J Mol Biol 1990;215:403-410. DOI ScienceOn |
9 | Laskowski RA, MacArthur MW, Moss DS, Thornton JM. PROCHECK: a program to check the stereochemical quality of protein structures. J Appl Crystallogr 1993;26:283-291. DOI ScienceOn |
10 | Wiederstein M, Sippl MJ. ProSA-web: interactive web service for the recognition of errors in three-dimensional structures of proteins. Nucleic Acids Res 2007;35:W407-W410. DOI |
11 | Jmol: an open-source Java viewer for chemical structures in 3D with features for chemicals, crystals, materials and biomolecules. Jmol. Accessed 2013 Feb 5. Available from: http://www.jmol.org/. |
12 | Watts KJ, Thompson CH, Cossart YE, Rose BR. Variable oncogene promoter activity of human papillomavirus type 16 cervical cancer isolates from Australia. J Clin Microbiol 2001;39: 2009-2014. DOI ScienceOn |