2PNY Isomerase date Apr 25, 2007
title Structure Of Human Isopentenyl-Diphosphate Delta-Isomerase 2
authors J.R.Walker, T.Davis, C.Butler-Cole, J.Weigelt, M.Sundstrom, C.H.Arrowsmith, A.M.Edwards, A.Bochkarev, S.Dhe-Paganon, Struct Genomics Consortium (Sgc)
compound source
Molecule: Isopentenyl-Diphosphate Delta-Isomerase 2
Chain: A
Synonym: Ipp Isomerase 2, Isopentenyl Pyrophosphate Isomera Ippi2;
Ec: 5.3.3.2
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Tissue: Skeletal Muscle
Gene: Idi2
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28-Lic
symmetry Space Group: P 21 21 21
R_factor 0.148 R_Free 0.182
crystal
cell
length a length b length c angle alpha angle beta angle gamma
50.897 52.815 96.391 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.81 Å
ligand CA, GOL, MN, POP enzyme Isomerase E.C.5.3.3.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (93 Kb) [Save to disk]
  • Biological Unit Coordinates (2pny.pdb1.gz) 84 Kb
  • LPC: Ligand-Protein Contacts for 2PNY
  • CSU: Contacts of Structural Units for 2PNY
  • Likely Quarternary Molecular Structure file(s) for 2PNY
  • Structure Factors (317 Kb)
  • Retrieve 2PNY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2PNY from S2C, [Save to disk]
  • Re-refined 2pny structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2PNY 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 2PNY
  • 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 2PNY, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2pny] [2pny_A]
  • SWISS-PROT database: [Q9BXS1]
  • Domain organization of [IDI2_HUMAN] by SWISSPFAM
    • Other resources with information on 2PNY
  • Community annotation for 2PNY 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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