2V6B Oxidoreductase date Jul 16, 2007
title Crystal Structure Of Lactate Dehydrogenase From Deinococcus Radiodurans (Apo Form)
authors N.Coquelle, E.Fioravanti, M.Weik, F.Vellieux
compound source
Molecule: L-Lactate Dehydrogenase
Chain: A, B, C, D
Synonym: L-Ldh
Ec: 1.1.1.27
Engineered: Yes
Organism_scientific: Deinococcus Radiodurans
Organism_taxid: 1299
Expression_system: Escherichia Coli Dh5[Alpha]
Expression_system_taxid: 668369
Expression_system_plasmid: Pkdl302
symmetry Space Group: P 21 21 2
R_factor 0.230 R_Free 0.250
crystal
cell
length a length b length c angle alpha angle beta angle gamma
123.350 127.930 72.920 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand
enzyme Oxidoreductase E.C.1.1.1.27 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceActivity, stability and structural studies of lactate dehydrogenases adapted to extreme thermal environments., Coquelle N, Fioravanti E, Weik M, Vellieux F, Madern D, J Mol Biol. 2007 Nov 23;374(2):547-62. Epub 2007 Sep 22. PMID:17936781
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (171 Kb) [Save to disk]
  • Biological Unit Coordinates (2v6b.pdb1.gz) 165 Kb
  • CSU: Contacts of Structural Units for 2V6B
  • Likely Quarternary Molecular Structure file(s) for 2V6B
  • Structure Factors (310 Kb)
  • Retrieve 2V6B in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2V6B from S2C, [Save to disk]
  • Re-refined 2v6b structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2V6B 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 2V6B
  • 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 2V6B, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2v6b_D] [2v6b] [2v6b_C] [2v6b_B] [2v6b_A]
  • SWISS-PROT database: [P50933]
  • Domain organization of [LDH_DEIRA] by SWISSPFAM
  • Other resources with information on 2V6B
  • Community annotation for 2V6B 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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