2F9V	Viral Protein	date	Dec 06, 2005
title	Hcv Ns3 Protease Domain With Ns4a Peptide And A Ketoamide In With P1 And P2 Cyclopropylalannines
authors	S.L.Bogen, S.Ruan, R.Liu, S.Agrawal, J.Pichardo, A.Prongay, B.Baro A.Saksena, V.Girijavallabhan, F.G.Njoroge
compound		source
Molecule: Ns3 Proteasehelicase Chain: A, C Fragment: Protease Domain (Residues : 1-181) Engineered: Yes		Organism_scientific: Hepatitis C Virus Organism_taxid: 11103 Strain: H Gene: Ns3 Protease Domain ( Residues 1027-1207 Of The Polyp Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Jm109(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Ns3(181)His6pet22b
Molecule: Polyprotein Chain: B, D Fragment: Residues 21-39 Engineered: Yes		Synthetic: Yes Other_details: Solid-Phase Peptide Synthesis Of The Ns4a Re 21-39 Peptide With N-Terminal Kk And C-Terminal Kk Extensio
symmetry	Space Group: H 3 2	R_factor 0.189 R_Free 0.264
crystal cell	length a length b length c angle alpha angle beta angle gamma 222.811 222.811 75.266 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.60 Å
ligand	BN6, ZN	enzyme
Gene Ontology	Chain Function Process Component A, C D, B
Primary reference	Depeptidization efforts on P3-P2' alpha-ketoamide inhibitors of HCV NS3-4A serine protease: effect on HCV replicon activity., Bogen SL, Ruan S, Liu R, Agrawal S, Pichardo J, Prongay A, Baroudy B, Saksena AK, Girijavallabhan V, Njoroge FG, Bioorg Med Chem Lett. 2006 Mar 15;16(6):1621-7. Epub 2006 Jan 4. PMID:16387495

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (67 Kb) [Save to disk] Biological Unit Coordinates (2f9v.pdb1.gz) 61 Kb LPC: Ligand-Protein Contacts for 2F9V CSU: Contacts of Structural Units for 2F9V Likely Quarternary Molecular Structure file(s) for 2F9V Structure Factors (381 Kb) Retrieve 2F9V in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2F9V from S2C, [Save to disk] Re-refined 2f9v structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2F9V 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 2F9V

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 2F9V, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2f9v_A] [2f9v] [2f9v_C] [2f9v_B] [2f9v_D] SWISS-PROT database: [P27958] Domain organization of [POLG_HCVH] by SWISSPFAM

Other resources with information on 2F9V

Community annotation for 2F9V at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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