Identification of structural motifs in the E2 glycoprotein of Chikungunya involved in virus–host interaction

References

• Altschul , S.F. , Gish , W. , Miller , W. , Myers , E.W. and Lipman , D.J. 1990 . Basic local alignment search tool . Journal of Molecular Biology , 215 : 403 – 410 .
   PubMed Web of Science ®Google Scholar
• Colovos , C. and Yeates , T.O. 1993 . Verification of protein structures: Patterns of nonbonded atomic interactions . Protein Science , 2 ( 9 ) : 1511 – 1519 .
   PubMed Web of Science ®Google Scholar
• Davis , N.L. , Pence , D.F. , Meyer , W.J. , Schmaljohn , A.L. and Johnston , R.E. 1987 . Alternative forms of a strain-specific neutralizing antigenic site on the sindbis virus E2 glycoprotein . Virology , 161 ( 1 ) : 101 – 108 .
   PubMed Web of Science ®Google Scholar
• Diella , F. , Haslam , N. , Chica , C. , Budd , A. , Michael , S. , Brown , N.P. , … and Gibson , T.J. 2008 . Understanding eukaryotic linear motifs and their role in cell signaling and regulation . Frontiers in Bioscience , 13 : 6580 – 6603 .
   PubMed Web of Science ®Google Scholar
• Eckford, P.D.W., & Bear, C.E. (2011). Targeting the regulation of CFTR channels. Biochemical Journal, 435(2), e1–4.
   Google Scholar
• Hooft , R.W. , Vriend , G. , Sander , C. and Abola , E.E. 1996 . Errors in protein structures . Nature , 381 ( 6580 ) : 272
   PubMed Web of Science ®Google Scholar
• Jorgensen , W.L. , Maxwell , D.S. and Tirado-Rives , J. 1996 . Development and testing of the OPLS all-atom force field on conformational energetics and properties of organic liquids . Journal of the American Chemical Society , 118 : 11225 – 11236 .
   Web of Science ®Google Scholar
• Jose , J. , Snyder , J.E. and Kuhn , R.J. 2009 . A structural and functional perspective of alphavirus replication and assembly . Future Microbiology , 4 : 837 – 856 .
   PubMed Web of Science ®Google Scholar
• Khan , A.H. , Morita , K. , Parquet , C. , Hasebe , F. , Mathenge , E.G.M. and Igarashi , A. 2002 . Complete nucleotide sequence of chikungunya virus and evidence for an internal polyadenylation site . Journal of General Virology , 83 : 3075 – 3084 .
   PubMed Web of Science ®Google Scholar
• Lahariya , C. and Pradhan , S.K. 2006 . Emergence of Chikungunya virus in Indian subcontinent after 32 years: A review . Journal of Vector Borne Diseases , 43 : 151 – 160 .
   PubMedGoogle Scholar
• Laskowski , R.A. , MacArthur , M.W. , Moss , D.S. and Thornton , J.M. 1993 . PROCHECK: A program to check the stereochemical quality of protein structures . Journal of Applied Crystallography , 26 : 283 – 291 .
   Web of Science ®Google Scholar
• Lee , I. , Date , S.V. , Adai , A.T. and Marcotte , E.M. 2004 . A probabilistic functional network of yeast genes . Science , 306 ( 5701 ) : 1555 – 1558 .
   PubMed Web of Science ®Google Scholar
• Lee , H.-J. and Zheng , J.J. 2010 . PDZ domains and their binding partners: Structure, specificity, and modification . Cell Communication and Signaling , 8 ( 8 ) : 1 – 18 .
   PubMed Web of Science ®Google Scholar
• Marsh , M. and Helenius , A. 1989 . Virus entry into animal cells . Advances in Virus Research , 36 : 107 – 151 .
   PubMed Web of Science ®Google Scholar
• Mukhopadhyay , S. , Zhang , W. , Gabler , S. , Chipman , P.R. , Strauss , E.G. , Strauss , J.H. and Rossmann , M.G. 2006 . Mapping the structure and function of the E1 and E2 glycoproteins in alphaviruses . Structure , 14 : 63 – 73 .
   PubMed Web of Science ®Google Scholar
• Prime. (2011). Version 3.0. New York, NY: Schrödinger, LLC.
   Google Scholar
• Puntervoll , P. , Linding , R. , Gemund , C. , Chabanis-Davidson , S. , Mattingsdal , M. , Cameron , S. , … and Gibson , T.J. 2003 . ELM server: A new resource for investigating short functional sites in modular eukaryotic proteins . Nucleic Acids Research , 31 ( 13 ) : 3625 – 3630 .
   PubMed Web of Science ®Google Scholar
• Ranganathan , R. and Ross , E.M. 1997 . PDZ domain proteins: Scaffolds for signaling complexes . Current Biology , 7 : 770 – 773 .
   PubMed Web of Science ®Google Scholar
• Simizu , B. , Yammoto , K. , Hashimoto , K. and Ogata , T. 1984 . Structural proteins of Chikungunya virus . Journal of Virology , 51 ( 1 ) : 254 – 258 .
   PubMed Web of Science ®Google Scholar
• Singh , K.D. , Kirubakaran , P. , Nagarajan , S. , Sakkiah , S. , Muthusamy , K. , Velmurugan , D. and Jeyakanthan , J. 2011 . Homology modeling, molecular dynamics, e-pharmacophore mapping and docking study of Chikungunya virus nsP2 protease . Journal of Molecular Modeling , 18 ( 1 ) : 39 – 51 .
   PubMed Web of Science ®Google Scholar
• Smith , T.J. , Cheng , R.H. , Olson , N.H. , Peterson , P. , Chase , E. , Kuhn , R.J. and Baker , T.S. 1995 . Putative receptor binding sites on alphaviruses as visualized by cryoelectron . Immunology , 92 : 10648 – 10652 .
   Google Scholar
• Strauss , E.G. , Stec , D.S. , Schmaljohn , A.L. and Strauss , J.H. 1991 . Identification of antigenically important domains in the glycoproteins of sindbis virus by analysis of antibody escape variants . Journal of Virology , 65 ( 9 ) : 4654 – 4664 .
   PubMed Web of Science ®Google Scholar
• Strauss , J.H. and Strauss , E.G. 1994 . The alphaviruses: Gene expression, replication, and evolution . Microbiological Reviews , 58 ( 3 ) : 491 – 562 .
   PubMedGoogle Scholar
• Tsetsarkin , K.A. , McGee , C.E. , Volk , S.M. , Vanlandingham , D.L. , Weaver , S.C. and Higgs , S. 2009 . Epistatic roles of E2 glycoprotein mutations in adaption of Chikungunya virus to Aedes Albopictus and Ae. Aegypti mosquitoes . PLoS ONE , 4 ( 8 ) : 1 – 12 .
   Web of Science ®Google Scholar
• Voss , J.E. , Vaney , M.C. , Duquerroy , S. , Vonrhein , C. , Girard-Blanc , C. , Crublet , E. , … and Rey , F.A. 2010 . Glycoprotein organization of Chikungunya virus particles revealed by X-ray crystallography . Nature , 468 : 709 – 712 .
   PubMed Web of Science ®Google Scholar
• Weaver , S.C. , Frey , T.K. , Huang , H.V. , Kinney , R.M. , Rice , C.M. , Roehrig , J.T. , … and Strauss , E.G. 2005 . “ Togaviridae ” . In Virus taxonomy eighth report of the international committee on taxonomy of viruses , Edited by: Fauquet , C.M. , Mayo , M.A. , Maniloff , J. , Desselberger , U. and Ball , L.A. 999 – 1008 . London : Elsevier Academic Press .
   Google Scholar
• Weaver , S.C. and Reisen , W.K. 2010 . Present and future arboviral threats . Antiviral Research , 85 : 328 – 345 .
   PubMed Web of Science ®Google Scholar
• Zhang , W. , Heil , M. , Kuhn , R.J. and Baker , T.S. 2005 . Heparin binding sites on ross river virus revealed by electron cryo-microscopy . Virology , 332 : 511 – 518 .
   PubMed Web of Science ®Google Scholar
• Zhang , R. , Hryc , C.F. , Cong , Y. , Liu , X. , Jakana , J. , Gorchakov , R. , … and Chiu , W. 2011 . 4.4 Å cryo-EM structure of an enveloped alphavirus venezuelan equine encephalitis virus . The EMBO Journal , 30 ( 18 ) : 3854 – 3863 .
   PubMed Web of Science ®Google Scholar