2O5F	Hydrolase	date	Dec 05, 2006
title	Crystal Structure Of Dr0079 From Deinococcus Radiodurans At Angstrom Resolution
authors	M.A.Kennedy, G.W.Buchko, S.Ni, H.Robinson
compound		source
Molecule: Putative Nudix Hydrolase Dr_0079 Chain: A, B Ec: 3.6.-.- Engineered: Yes		Organism_scientific: Deinococcus Radiodurans Organism_taxid: 243230 Strain: R1 Gene: Dr0079 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: K12 Bl21 (De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet30b
symmetry	Space Group: C 2 2 21	R_factor 0.234 R_Free 0.267
crystal cell	length a length b length c angle alpha angle beta angle gamma 34.019 156.554 126.560 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.90 Å
ligand		enzyme	Hydrolase E.C.3.6 BRENDA
Gene Ontology	Chain Function Process Component A, B
Primary reference	Functional and Structural Characterization of DR_0079 from Deinococcus radiodurans, a Novel Nudix Hydrolase with a Preference for Cytosine (Deoxy)ribonucleoside 5'-Di- and Triphosphates., Buchko GW, Litvinova O, Robinson H, Yakunin AF, Kennedy MA, Biochemistry. 2008 May 31;. PMID:18512963

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (57 Kb) [Save to disk] Biological Unit Coordinates (2o5f.pdb1.gz) 27 Kb Biological Unit Coordinates (2o5f.pdb2.gz) 28 Kb CSU: Contacts of Structural Units for 2O5F Likely Quarternary Molecular Structure file(s) for 2O5F Structure Factors (249 Kb) Retrieve 2O5F in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2O5F from S2C, [Save to disk] Re-refined 2o5f structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2O5F 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 2O5F

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 2O5F, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2o5f_B] [2o5f] [2o5f_A] SWISS-PROT database: [Q9RY71] Domain organization of [Y079_DEIRA] by SWISSPFAM

Other resources with information on 2O5F

Community annotation for 2O5F at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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