5EK2 Oxidoreductase Oxidoreductase Inhibitor date Nov 03, 2015
title Crystal Structure Of The Indoleamine 2,3-Dioxygenagse 1 (Ido Complexed With Nlg919 Analogue
authors Y.H.Peng, J.S.Wu, S.Y.Wu
compound source
Molecule: Indoleamine 2,3-Dioxygenase 1
Chain: A, B
Synonym: Ido-1,Indoleamine-Pyrrole 2,3-Dioxygenase
Ec: 1.13.11.52
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ido1, Ido, Indo
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
symmetry Space Group: P 21 21 21
R_factor 0.171 R_Free 0.231
crystal
cell
length a length b length c angle alpha angle beta angle gamma
86.005 96.985 131.206 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.68 Å
ligand 5PJ, HEM enzyme Oxidoreductase E.C.1.13.11.52 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • electron transfer activity


    • Primary referenceImportant Hydrogen Bond Networks in Indoleamine 2,3-Dioxygenase 1 (IDO1) Inhibitor Design Revealed by Crystal Structures of Imidazoleisoindole Derivatives with IDO1., Peng YH, Ueng SH, Tseng CT, Hung MS, Song JS, Wu JS, Liao FY, Fan YS, Wu MH, Hsiao WC, Hsueh CC, Lin SY, Cheng CY, Tu CH, Lee LC, Cheng MF, Shia KS, Shih C, Wu SY, J Med Chem. 2015 Dec 21. PMID:26642377
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (259 Kb) [Save to disk]
  • Biological Unit Coordinates (5ek2.pdb1.gz) 126 Kb
  • Biological Unit Coordinates (5ek2.pdb2.gz) 128 Kb
  • LPC: Ligand-Protein Contacts for 5EK2
  • CSU: Contacts of Structural Units for 5EK2
  • Structure Factors (941 Kb)
  • Retrieve 5EK2 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5EK2 from S2C, [Save to disk]
  • Re-refined 5ek2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5EK2 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 5EK2
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5ek2_A] [5ek2_B] [5ek2]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5EK2
  • Community annotation for 5EK2 at PDBWiki (http://pdbwiki.org)

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