2OKD	Hydrolase	date	Jan 16, 2007
title	High Resolution Crystal Structures Of Vaccinia Virus Dutpase
authors	N.Schormann, D.Chattopadhyay
compound		source
Molecule: Deoxyuridine 5'-Triphosphate Nucleotidohydrolase Chain: A, B, C Synonym: Dutpase, Dutp Pyrophosphatase Ec: 3.6.1.23 Engineered: Yes		Organism_scientific: Vaccinia Virus Organism_taxid: 10245 Gene: Dut Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3)Plyss Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet15b
symmetry	Space Group: P 65	R_factor 0.206 R_Free 0.268
crystal cell	length a length b length c angle alpha angle beta angle gamma 120.010 120.010 50.300 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.40 Å
ligand	CL, EDO	enzyme	Hydrolase E.C.3.6.1.23 BRENDA
Gene Ontology	Chain Function Process Component A, C, B
Primary reference	Structures of vaccinia virus dUTPase and its nucleotide complexes., Samal A, Schormann N, Cook WJ, Delucas LJ, Chattopadhyay D, Acta Crystallogr D Biol Crystallogr. 2007 May;63(Pt 5):571-80. Epub 2007, Apr 21. PMID:17452782

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (67 Kb) [Save to disk] Biological Unit Coordinates (2okd.pdb1.gz) 61 Kb LPC: Ligand-Protein Contacts for 2OKD CSU: Contacts of Structural Units for 2OKD Likely Quarternary Molecular Structure file(s) for 2OKD Structure Factors (242 Kb) Retrieve 2OKD in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2OKD from S2C, [Save to disk] Re-refined 2okd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2OKD 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 2OKD

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 2OKD, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2okd_C] [2okd_B] [2okd] [2okd_A] SWISS-PROT database: [A4GD96] Domain organization of [A4GD96_9POXV] by SWISSPFAM

Other resources with information on 2OKD

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

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