3MAS Oxidoreductase date Mar 24, 2010
title Crystal Structure Of Heterodimeric R132h Mutant Of Human Cyt Nadp(+)-Dependent Isocitrate Dehydrogenase In Complex With Isocitrate
authors B.Yang, Y.Peng, J.Ding
compound source
Molecule: Isocitrate Dehydrogenase [Nadp] Cytoplasmic
Chain: A
Synonym: Idh, Cytosolic Nadp-Isocitrate Dehydrogenase, Oxal Decarboxylase, Nadp(+)-Specific Icdh, Idp;
Ec: 1.1.1.42
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Idh1, Picd
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Prsf-Duet

Molecule: Isocitrate Dehydrogenase [Nadp] Cytoplasmic
Chain: B
Synonym: Idh, Cytosolic Nadp-Isocitrate Dehydrogenase, Oxal Decarboxylase, Nadp(+)-Specific Icdh, Idp;
Ec: 1.1.1.42
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Idh1, Picd
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-4t1
symmetry Space Group: P 43 21 2
R_factor 0.233 R_Free 0.283
crystal
cell
length a length b length c angle alpha angle beta angle gamma
83.136 83.136 308.508 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.20 Å
ligand ICT, NAP enzyme Oxidoreductase E.C.1.1.1.42 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceMolecular mechanisms of "off-on switch" of activities of human IDH1 by tumor-associated mutation R132H., Yang B, Zhong C, Peng Y, Lai Z, Ding J, Cell Res. 2010 Nov;20(11):1188-200. Epub 2010 Oct 26. PMID:20975740
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (134 Kb) [Save to disk]
  • Biological Unit Coordinates (3mas.pdb1.gz) 128 Kb
  • LPC: Ligand-Protein Contacts for 3MAS
  • CSU: Contacts of Structural Units for 3MAS
  • Structure Factors (260 Kb)
  • Retrieve 3MAS in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3MAS from S2C, [Save to disk]
  • Re-refined 3mas structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3MAS 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 3MAS
  • 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 3MAS, from MSDmotif at EBI
  • Fold representative 3mas from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3mas] [3mas_B] [3mas_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 3MAS with the sequences similar proteins can be viewed for 3MAS's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3MAS
  • Community annotation for 3MAS at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014
    Bioinformatics Unit
    Weizmann Institute of Science