3LCB Transferase, Hydrolase date Jan 10, 2010
title The Crystal Structure Of Isocitrate Dehydrogenase Kinasepho In Complex With Its Substrate, Isocitrate Dehydrogenase, Fr Escherichia Coli.
authors J.Zheng, Z.Jia
compound source
Molecule: Isocitrate Dehydrogenase Kinasephosphatase
Chain: A, B
Synonym: Idh Kinasephosphatase, Idhkp
Ec: 2.7.11.5, 3.1.3.-
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 83334
Strain: O157:H7
Gene: Acek, Ech74115_5487
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: De3
Expression_system_vector_type: Plasmid

Molecule: Isocitrate Dehydrogenase [Nadp]
Chain: C, D
Synonym: Idh, Oxalosuccinate Decarboxylase, Nadp(+)-Specifi Idp;
Ec: 1.1.1.42
Engineered: Yes

Organism_scientific: Escherichia Coli
Organism_taxid: 83333
Strain: K12
Gene: B1136, Icd, Icda, Icde, Icdh, Jw1122
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: De3
Expression_system_vector_type: Plasmid
symmetry Space Group: P 63
R_factor 0.190 R_Free 0.222
crystal
cell
length a length b length c angle alpha angle beta angle gamma
196.801 196.801 156.458 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.90 Å
ligand AMP, ATP, MG enzyme Transferase E.C.2.7.11.5 BRENDA
note 3LCB (Molecule of the Month:pdb129)
Gene ECH74115
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • protein serine/threonine kin...
  • phosphoprotein phosphatase a...
  • [isocitrate dehydrogenase (N...
  • phosphatase activity


  • D, C


    Primary referenceStructure of the bifunctional isocitrate dehydrogenase kinase/phosphatase., Zheng J, Jia Z, Nature. 2010 Jun 17;465(7300):961-5. Epub 2010 May 26. PMID:20505668
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (630 Kb) [Save to disk]
  • Biological Unit Coordinates (3lcb.pdb1.gz) 315 Kb
  • Biological Unit Coordinates (3lcb.pdb2.gz) 315 Kb
  • Biological Unit Coordinates (3lcb.pdb3.gz) 1863 Kb
  • LPC: Ligand-Protein Contacts for 3LCB
  • CSU: Contacts of Structural Units for 3LCB
  • Structure Factors (1193 Kb)
  • Retrieve 3LCB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3LCB from S2C, [Save to disk]
  • Re-refined 3lcb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3LCB 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 3LCB
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3LCB, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3lcb_C] [3lcb_A] [3lcb] [3lcb_D] [3lcb_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3LCB: [Iso_dh ] by SMART
  • Other resources with information on 3LCB
  • Community annotation for 3LCB 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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