2JKV Oxidoreductase date Sep 01, 2008
title Structure Of Human Phosphogluconate Dehydrogenase In Complex Nadph At 2.53a
authors E.S.Pilka, K.L.Kavanagh, F.Von Delft, J.R.C.Muniz, J.Murray, S.Pi K.Guo, A.Edwards, C.H.Arrowsmith, J.Weigelt, C.Bountra, U.Opperm
compound source
Molecule: 6-Phosphogluconate Dehydrogenase, Decarboxylating
Chain: A, B, C, D, E, F
Ec: 1.1.1.44
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_plasmid: Pnic28-Bsa4
symmetry Space Group: P 1 21 1
R_factor 0.156 R_Free 0.207
crystal
cell
length a length b length c angle alpha angle beta angle gamma
56.643 204.714 170.319 90.00 90.65 90.00
method X-Ray Diffractionresolution 2.53 Å
ligand CL, NAP, SO4 enzyme Oxidoreductase E.C.1.1.1.44 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (978 Kb) [Save to disk]
  • Biological Unit Coordinates (2jkv.pdb1.gz) 326 Kb
  • Biological Unit Coordinates (2jkv.pdb2.gz) 325 Kb
  • Biological Unit Coordinates (2jkv.pdb3.gz) 321 Kb
  • LPC: Ligand-Protein Contacts for 2JKV
  • CSU: Contacts of Structural Units for 2JKV
  • Structure Factors (4074 Kb)
  • Retrieve 2JKV in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2JKV from S2C, [Save to disk]
  • Re-refined 2jkv structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2JKV 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 2JKV
  • 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 2JKV, from MSDmotif at EBI
  • Fold representative 2jkv from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2jkv_D] [2jkv_A] [2jkv_F] [2jkv_C] [2jkv] [2jkv_E] [2jkv_B]
  • SWISS-PROT database: [P52209]
  • Domain organization of [6PGD_HUMAN] by SWISSPFAM
  • Domain found in 2JKV: [6PGD ] by SMART
  • Other resources with information on 2JKV
  • Community annotation for 2JKV 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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