2XIJ Isomerase date Jun 30, 2010
title Crystal Structure Of Human Methylmalonyl-Coa Mutase In Complex With Adenosylcobalamin
authors W.W.Yue, D.S.Froese, G.Kochan, A.Chaikuad, T.Krojer, J.Muniz, M.Vo C.Arrowsmith, J.Weigelt, A.Edwards, C.Bountra, U.Oppermann
compound source
Molecule: Methylmalonyl-Coa Mutase, Mitochondrial
Chain: A
Synonym: Mcm, Methylmalonyl-Coa Isomerase
Ec: 5.4.99.2
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)-R3-Prare2
Expression_system_vector: Pnic28-Cthf
symmetry Space Group: C 2 2 21
R_factor 0.15800 R_Free 0.19902
crystal
cell
length a length b length c angle alpha angle beta angle gamma
59.360 137.720 198.400 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.95 Å
ligand 5AD, B12, BTB, EDO, SO4 enzyme Isomerase E.C.5.4.99.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructures of the human GTPase MMAA and vitamin B12-dependent methylmalonyl-coa mutase and insight into their complex formation., Froese DS, Kochan G, Muniz J, Wu X, Gileadi C, Ugochukwu E, Krysztofinska E, Gravel RA, Oppermann U, Yue WW, J Biol Chem. 2010 Sep 28. PMID:20876572
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (246 Kb) [Save to disk]
  • Biological Unit Coordinates (2xij.pdb1.gz) 473 Kb
  • LPC: Ligand-Protein Contacts for 2XIJ
  • CSU: Contacts of Structural Units for 2XIJ
  • Structure Factors (3112 Kb)
  • Retrieve 2XIJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2XIJ from S2C, [Save to disk]
  • Re-refined 2xij structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2XIJ 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 2XIJ
  • 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 2XIJ, from MSDmotif at EBI
  • Fold representative 2xij from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2xij_A] [2xij]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 2XIJ with the sequences similar proteins can be viewed for 2XIJ'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 2XIJ
  • Community annotation for 2XIJ 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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