3MAR Oxidoreductase date Mar 24, 2010
title Crystal Structure Of Homodimeric R132h Mutant Of Human Cytos Nadp(+)-Dependent Isocitrate Dehydrogenase In Complex With
authors B.Yang, Y.Peng, J.Ding
compound source
Molecule: Isocitrate Dehydrogenase [Nadp] Cytoplasmic
Chain: A, B
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
symmetry Space Group: P 43 21 2
R_factor 0.245 R_Free 0.289
crystal
cell
length a length b length c angle alpha angle beta angle gamma
83.099 83.099 306.116 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.41 Å
ligand 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] (125 Kb) [Save to disk]
  • Biological Unit Coordinates (3mar.pdb1.gz) 119 Kb
  • LPC: Ligand-Protein Contacts for 3MAR
  • CSU: Contacts of Structural Units for 3MAR
  • Structure Factors (114 Kb)
  • Retrieve 3MAR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3MAR from S2C, [Save to disk]
  • Re-refined 3mar structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3MAR 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 3MAR
  • 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 3MAR, from MSDmotif at EBI
  • Fold representative 3mar from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3mar_B] [3mar_A] [3mar]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3MAR
  • Community annotation for 3MAR 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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