3I0X Hydrolase,Lyase Dna date Jun 25, 2009
title Crystal Structure Of Clostridium Acetobutylicum 8-Oxoguanine Glycosylaselyase In Complex With Dsdna Containing Adenine Opposite To 8-Oxog
authors F.Faucher, S.Doublie
compound source
Molecule: 8-Oxoguanine-Dna-Glycosylase
Chain: A
Ec: 3.2.2.-, 4.2.99.18
Engineered: Yes
Mutation: Yes
Organism_scientific: Clostridium Acetobutylicum
Organism_taxid: 1488
Gene: Cac2707, Ca_c2707
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Er2566(Fpg-)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ptyb2

Molecule: 5'-D(Aptpcpcpap(8og)Pgptpcptpapcpc)- 3';
Chain: C
Engineered: Yes

Synthetic: Yes
Other_details: This Sequence Occurs Naturally

Molecule: 5'-D(Gpgptpapgpapcpaptpgpgpa)-3'
Chain: D
Engineered: Yes

Synthetic: Yes
Other_details: This Sequence Occurs Naturally
symmetry Space Group: P 65 2 2
R_factor 0.187 R_Free 0.210
crystal
cell
length a length b length c angle alpha angle beta angle gamma
92.130 92.130 190.730 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.80 Å
ligand 8OG, NA enzyme Hydrolase E.C.3.2.2 BRENDA
Gene CA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural basis for the lack of opposite base specificity of Clostridium acetobutylicum 8-oxoguanine DNA glycosylase., Faucher F, Wallace SS, Doublie S, DNA Repair (Amst). 2009 Sep 9. PMID:19747886
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (71 Kb) [Save to disk]
  • Biological Unit Coordinates (3i0x.pdb1.gz) 66 Kb
  • LPC: Ligand-Protein Contacts for 3I0X
  • CSU: Contacts of Structural Units for 3I0X
  • Structure Factors (315 Kb)
  • Retrieve 3I0X in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3I0X from S2C, [Save to disk]
  • Re-refined 3i0x structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3I0X 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 3I0X
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3I0X, from MSDmotif at EBI
  • Fold representative 3i0x from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3i0x_C] [3i0x] [3i0x_D] [3i0x_A]
  • SWISS-PROT database: [Q97FM4]
  • Domain organization of [Q97FM4_CLOAB] by SWISSPFAM
  • Domain found in 3I0X: [ENDO3c ] by SMART
  • Other resources with information on 3I0X
  • Community annotation for 3I0X at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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