2O8M	Viral Protein	date	Dec 12, 2006
title	Crystal Structure Of The S139a Mutant Of Hepatitis C Virus N Protease
authors	T.O.Fischmann, A.J.Prongay, V.M.Madison, N.Yao
compound		source
Molecule: Protease Chain: A, B Ec: 3.4.22.- Engineered: Yes Mutation: Yes		Organism_scientific: Hepatitis C Virus Organism_taxid: 11103 Gene: Hcv Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Protease Chain: C, D Engineered: Yes		Synthetic: Yes
symmetry	Space Group: H 3 2	R_factor 0.194 R_Free 0.228
crystal cell	length a length b length c angle alpha angle beta angle gamma 224.640 224.640 75.360 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand	NA, ZN	enzyme	Hydrolase E.C.3.4.22 BRENDA
Gene Ontology	Chain Function Process Component A, B D, C
Primary reference	Discovery of the HCV NS3/4A protease inhibitor (1R,5S)-N-[3-amino-1-(cyclobutylmethyl)-2,3-dioxopropyl]-3- [2(S)-[[[(1,1-dimethylethyl)amino]carbonyl]amino]-3,3-dimethyl-1-oxobutyl] - 6,6-dimethyl-3-azabicyclo[3.1.0]hexan-2(S)-carboxamide (Sch 503034) II. Key steps in structure-based optimization., Prongay AJ, Guo Z, Yao N, Pichardo J, Fischmann T, Strickland C, Myers J Jr, Weber PC, Beyer BM, Ingram R, Hong Z, Prosise WW, Ramanathan L, Taremi SS, Yarosh-Tomaine T, Zhang R, Senior M, Yang RS, Malcolm B, Arasappan A, Bennett F, Bogen SL, Chen K, Jao E, Liu YT, Lovey RG, Saksena AK, Venkatraman S, Girijavallabhan V, Njoroge FG, Madison V, J Med Chem. 2007 May 17;50(10):2310-8. Epub 2007 Apr 20. PMID:17444623

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (67 Kb) [Save to disk] Biological Unit Coordinates (2o8m.pdb1.gz) 61 Kb LPC: Ligand-Protein Contacts for 2O8M CSU: Contacts of Structural Units for 2O8M Likely Quarternary Molecular Structure file(s) for 2O8M Structure Factors (377 Kb) Retrieve 2O8M in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2O8M from S2C, [Save to disk] Re-refined 2o8m structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2O8M in 3D

Proteopedia, because life has more than 2D. On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure. On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 2O8M

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 2O8M, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2o8m_A] [2o8m] [2o8m_B] [2o8m_D] [2o8m_C] SWISS-PROT database: [P27958] [Q9ELS8] Domain organization of [POLG_HCVH] [Q9ELS8_9HEPC] by SWISSPFAM

Other resources with information on 2O8M

Community annotation for 2O8M at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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