1X0X Oxidoreductase date Mar 31, 2005
title Co-Structure Of Homo Sapiens Glycerol-3-Phosphate Dehydrogen Complex With Nad
authors Z.Rao, X.Ou
compound source
Molecule: Glycerol-3-Phosphate Dehydrogenase [Nad+], Cytopl
Chain: A
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: I 41 2 2
R_factor 0.178 R_Free 0.239
length a length b length c angle alpha angle beta angle gamma
116.599 116.599 153.742 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.75 Å
ligand NAD, SO4 enzyme Oxidoreductase E.C. BRENDA

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] (64 Kb) [Save to disk]
  • Biological Unit Coordinates (1x0x.pdb1.gz) 60 Kb
  • Biological Unit Coordinates (1x0x.pdb2.gz) 118 Kb
  • LPC: Ligand-Protein Contacts for 1X0X
  • CSU: Contacts of Structural Units for 1X0X
  • Likely Quarternary Molecular Structure file(s) for 1X0X
  • Structure Factors (186 Kb)
  • Retrieve 1X0X in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1X0X from S2C, [Save to disk]
  • Re-refined 1x0x structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1X0X 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 1X0X
  • 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 1X0X, from MSDmotif at EBI
  • Fold representative 1x0x from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1x0x] [1x0x_A]
  • SWISS-PROT database: [P21695]
  • Domain organization of [GPDA_HUMAN] by SWISSPFAM
  • Other resources with information on 1X0X
  • Community annotation for 1X0X 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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