2IDJ Transferase date Sep 15, 2006
title Crystal Structure Of Rat Glycine N-Methyltransferase Apoprot Monoclinic Form
authors Z.Luka, S.Pakhomova, L.V.Loukachevitch, M.Egli, M.E.Newcomer, C.W
compound source
Molecule: Glycine N-Methyltransferase
Chain: A, B, C, D
Synonym: Folate-Binding Protein
Ec: 2.1.1.20
Engineered: Yes
Organism_scientific: Rattus Norvegicus
Organism_common: Norway Rat
Organism_taxid: 10116
Strain: Sprague-Dawley
Gene: Gnmt
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Pet17-B
Expression_system_plasmid: Pr6
symmetry Space Group: P 1 21 1
R_factor 0.222 R_Free 0.272
crystal
cell
length a length b length c angle alpha angle beta angle gamma
57.869 85.223 131.861 90.00 91.40 90.00
method X-Ray Diffractionresolution 2.35 Å
ligand CA enzyme Transferase E.C.2.1.1.20 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary reference5-methyltetrahydrofolate is bound in intersubunit areas of rat liver folate-binding protein glycine N-methyltransferase., Luka Z, Pakhomova S, Loukachevitch LV, Egli M, Newcomer ME, Wagner C, J Biol Chem. 2007 Feb 9;282(6):4069-75. Epub 2006 Dec 7. PMID:17158459
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (184 Kb) [Save to disk]
  • Biological Unit Coordinates (2idj.pdb1.gz) 178 Kb
  • LPC: Ligand-Protein Contacts for 2IDJ
  • CSU: Contacts of Structural Units for 2IDJ
  • Likely Quarternary Molecular Structure file(s) for 2IDJ
  • Structure Factors (364 Kb)
  • Retrieve 2IDJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2IDJ from S2C, [Save to disk]
  • Re-refined 2idj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2IDJ 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 2IDJ
  • 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
  • 3D motif for 2IDJ, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2idj_B] [2idj_C] [2idj_A] [2idj_D] [2idj]
  • SWISS-PROT database: [P13255]
  • Domain organization of [GNMT_RAT] by SWISSPFAM
  • Other resources with information on 2IDJ
  • Community annotation for 2IDJ 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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