2Q3E Oxidoreductase date May 30, 2007
title Structure Of Human Udp-Glucose Dehydrogenase Complexed With Udp-Glucose
authors K.L.Kavanagh, K.Guo, G.Bunkoczi, P.Savitsky, E.Pilka, C.Bhatia, C. G.Berridge, F.Von Delft, J.Wiegelt, C.Arrowsmith, M.Sundstrom, A U.Oppermann, Structural Genomics Consortium (Sgc)
compound source
Molecule: Udp-Glucose 6-Dehydrogenase
Chain: A, B, C, D, E, F, G, H, I, J, K, L
Synonym: Udp-Glc Dehydrogenase, Udp-Glcdh, Udpgdh
Ec: 1.1.1.22
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ugdh
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pben1-Sgc
symmetry Space Group: P 1 21 1
R_factor 0.172 R_Free 0.205
crystal
cell
length a length b length c angle alpha angle beta angle gamma
115.990 184.132 170.943 90.00 109.23 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand CL, NAI, UPG enzyme Oxidoreductase E.C.1.1.1.22 BRENDA
note 2Q3E is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
F, A, J, K, E, B, H, C, D, I, G, L


Primary referenceStructure and mechanism of human UDP-glucose 6-dehydrogenase., Egger S, Chaikuad A, Kavanagh KL, Oppermann U, Nidetzky B, J Biol Chem. 2011 Jul 8;286(27):23877-87. Epub 2011 Apr 18. PMID:21502315
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (942 Kb) [Save to disk]
  • Biological Unit Coordinates (2q3e.pdb1.gz) 472 Kb
  • Biological Unit Coordinates (2q3e.pdb2.gz) 467 Kb
  • LPC: Ligand-Protein Contacts for 2Q3E
  • CSU: Contacts of Structural Units for 2Q3E
  • Likely Quarternary Molecular Structure file(s) for 2Q3E
  • Structure Factors (23454 Kb)
  • Retrieve 2Q3E in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2Q3E from S2C, [Save to disk]
  • Re-refined 2q3e structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2Q3E 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 2Q3E
  • 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 2Q3E, from MSDmotif at EBI
  • Fold representative 2q3e from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2q3e_H] [2q3e_G] [2q3e_K] [2q3e_B] [2q3e_D] [2q3e_F] [2q3e_J] [2q3e_I] [2q3e_A] [2q3e_E] [2q3e_L] [2q3e_C] [2q3e]
  • SWISS-PROT database: [O60701]
  • Domain organization of [UGDH_HUMAN] by SWISSPFAM
  • Domain found in 2Q3E: [UDPG_MGDP_dh_C ] by SMART
  • Other resources with information on 2Q3E
  • Community annotation for 2Q3E 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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