2FMY Dna Binding Protein date Jan 10, 2006
title Co-Dependent Transcription Factor Cooa From Carboxydothermus Hydrogenoformans (Imidazole-Bound Form)
authors Y.Higuchi, H.Komori
compound source
Molecule: Carbon Monoxide Oxidation System Transcription Re Cooa-1;
Chain: A, B, C, D
Synonym: Cooa
Engineered: Yes
 Organism_scientific: Carboxydothermus Hydrogenoformans
Organism_taxid: 129958
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28
symmetry Space Group: P 1 21 1
R_factor 0.207 R_Free 0.247
crystal
cell
length a length b length c angle alpha angle beta angle gamma
61.654 93.930 91.901 90.00 104.73 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand HEM, IMD enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceCrystal Structure of CO-sensing Transcription Activator CooA Bound to Exogenous Ligand Imidazole., Komori H, Inagaki S, Yoshioka S, Aono S, Higuchi Y, J Mol Biol. 2007 Mar 30;367(3):864-71. Epub 2007 Jan 23. PMID:17292914
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (152 Kb) [Save to disk]
  • Biological Unit Coordinates (2fmy.pdb1.gz) 74 Kb
  • Biological Unit Coordinates (2fmy.pdb2.gz) 74 Kb
  • LPC: Ligand-Protein Contacts for 2FMY
  • CSU: Contacts of Structural Units for 2FMY
  • Likely Quarternary Molecular Structure file(s) for 2FMY
  • Structure Factors (411 Kb)
  • Retrieve 2FMY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2FMY from S2C, [Save to disk]
  • Re-refined 2fmy structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2FMY 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 2FMY
  • 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 2FMY, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2fmy_D] [2fmy] [2fmy_A] [2fmy_C] [2fmy_B]
  • SWISS-PROT database: [Q3AB29]
  • Domain organization of [Q3AB29_CARHZ] by SWISSPFAM
  • Domains found in 2FMY: [HTH_CRP] [cNMP ] by SMART
    • Other resources with information on 2FMY
  • Community annotation for 2FMY 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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