2VRB Oxidoreductase date Mar 31, 2008
title Crystal Structure Of The Citrobacter Sp. Triphenylmethane Reductase Complexed With Nadp(H)
authors Y.Kim, H.J.Park, S.N.Kwak, J.S.Lee, T.K.Oh, M.H.Kim
compound source
Molecule: Triphenylmethane Reductase
Chain: A
Engineered: Yes
 Organism_scientific: Citrobacter Sp. My-5
Organism_taxid: 308866
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rosseta Gami (De3)
symmetry Space Group: C 2 2 21
R_factor 0.200 R_Free 0.242
crystal
cell
length a length b length c angle alpha angle beta angle gamma
58.800 141.645 75.811 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.0 Å
ligand NAP enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural Insight into Bioremediation of Triphenylmethane Dyes by Citrobacter sp. Triphenylmethane Reductase., Kim MH, Kim Y, Park HJ, Lee JS, Kwak SN, Jung WH, Lee SG, Kim D, Lee YC, Oh TK, J Biol Chem. 2008 Nov 14;283(46):31981-90. Epub 2008 Sep 9. PMID:18782772
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (52 Kb) [Save to disk]
  • Biological Unit Coordinates (2vrb.pdb1.gz) 94 Kb
  • LPC: Ligand-Protein Contacts for 2VRB
  • CSU: Contacts of Structural Units for 2VRB
  • Likely Quarternary Molecular Structure file(s) for 2VRB
  • Structure Factors (293 Kb)
  • Retrieve 2VRB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2VRB from S2C, [Save to disk]
  • Re-refined 2vrb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2VRB 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 2VRB
  • 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 2VRB, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2vrb] [2vrb_A]
  • SWISS-PROT database: [Q2TNI4]
  • Domain organization of [Q2TNI4_9ENTR] by SWISSPFAM
    • Other resources with information on 2VRB
  • Community annotation for 2VRB 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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