3I39 Oxidoreductase date Jun 30, 2009
title Ni,Fe-Codh-320 Mv+Cn State
authors J.H.Jeoung, H.Dobbek
compound source
Molecule: Carbon Monoxide Dehydrogenase 2
Chain: X
Synonym: Codh 2
Engineered: Yes
Mutation: Yes
Organism_scientific: Carboxydothermus Hydrogenoformans
Organism_taxid: 246194
Strain: Z-2901
Gene: Chy_0085, Coos2, Coosii
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rossetta De3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a
symmetry Space Group: C 1 2 1
R_factor 0.154 R_Free 0.190
length a length b length c angle alpha angle beta angle gamma
111.279 75.834 71.099 90.00 111.33 90.00
method X-Ray Diffractionresolution 1.36 Å
ligand CYN, FE2, FES, SF4, WCC enzyme Oxidoreductase E.C. BRENDA
Gene CHY

Primary referenceStructural basis of cyanide inhibition of Ni, Fe-containing carbon monoxide dehydrogenase., Jeoung JH, Dobbek H, J Am Chem Soc. 2009 Jul 29;131(29):9922-3. PMID:19583208
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (129 Kb) [Save to disk]
  • Biological Unit Coordinates (3i39.pdb1.gz) 239 Kb
  • LPC: Ligand-Protein Contacts for 3I39
  • CSU: Contacts of Structural Units for 3I39
  • Structure Factors (1001 Kb)
  • Retrieve 3I39 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3I39 from S2C, [Save to disk]
  • Re-refined 3i39 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3I39 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 3I39
  • 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 3I39, from MSDmotif at EBI
  • Fold representative 3i39 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3i39] [3i39_X]
  • SWISS-PROT database: [Q9F8A8]
  • Domain organization of [COOS2_CARHZ] by SWISSPFAM
  • Other resources with information on 3I39
  • Community annotation for 3I39 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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