1X0V Oxidoreductase date Mar 30, 2005
title Crystal Structure Of Homo Sapien Glycerol-3-Phosphate Dehydrogenase 1
authors Z.Rao, X.Ou
compound source
Molecule: Glycerol-3-Phosphate Dehydrogenase [Nad+], Cytoplasmic;
Chain: A, B
Synonym: Gpd-C, Gpdh-C
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: De3(Bl21)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-6p-1
symmetry Space Group: P 43 21 2
R_factor 0.205 R_Free 0.249
length a length b length c angle alpha angle beta angle gamma
113.488 113.488 155.436 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand MSE, SO4 enzyme Oxidoreductase E.C. BRENDA
A, B

Primary referenceCrystal Structures of Human Glycerol 3-phosphate Dehydrogenase 1 (GPD1)., Ou X, Ji C, Han X, Zhao X, Li X, Mao Y, Wong LL, Bartlam M, Rao Z, J Mol Biol. 2006 Mar 31;357(3):858-69. Epub 2006 Jan 18. PMID:16460752
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (127 Kb) [Save to disk]
  • Biological Unit Coordinates (1x0v.pdb1.gz) 121 Kb
  • Biological Unit Coordinates (1x0v.pdb2.gz) 121 Kb
  • LPC: Ligand-Protein Contacts for 1X0V
  • CSU: Contacts of Structural Units for 1X0V
  • Likely Quarternary Molecular Structure file(s) for 1X0V
  • Structure Factors (1895 Kb)
  • Retrieve 1X0V in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1X0V from S2C, [Save to disk]
  • Re-refined 1x0v structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1X0V 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 1X0V
  • 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 1X0V, from MSDmotif at EBI
  • Fold representative 1x0v from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1x0v_A] [1x0v_B] [1x0v]
  • SWISS-PROT database: [P21695]
  • Domain organization of [GPDA_HUMAN] by SWISSPFAM
  • Other resources with information on 1X0V
  • Community annotation for 1X0V 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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