5CG5 Transferase Transferase Inhibotor date Jul 09, 2015
title Neutron Crystal Structure Of Human Farnesyl Pyrophosphate Sy Complex With Risedronate
authors T.Yokoyama, M.Mizuguchi, A.Ostermann, K.Kusaka, N.Niimura, T.E.Sc I.Tanaka
compound source
Molecule: Farnesyl Pyrophosphate Synthase
Chain: A
Fragment: Unp Residues 74-419
Synonym: Fps,(2e,6e)-Farnesyl Diphosphate Synthase, Dimethylallyltranstransferase,Farnesyl Diphosphate Synthase Geranyltranstransferase;
Ec: 2.5.1.10,2.5.1.1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Fdps, Fps, Kiaa1293
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 41 21 2
R_factor 0.186 R_Free 0.229
crystal
cell
length a length b length c angle alpha angle beta angle gamma
111.966 111.966 72.754 90.00 90.00 90.00
method X-Ray Diffraction; Neutron Diffractionresolution 1.40 Å
ligand MG, RIS enzyme Transferase E.C.2.5.1.10 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceProtonation State and Hydration of Bisphosphonate Bound to Farnesyl Pyrophosphate Synthase., Yokoyama T, Mizuguchi M, Ostermann A, Kusaka K, Niimura N, Schrader TE, Tanaka I, J Med Chem. 2015 Sep 24;58(18):7549-56. doi: 10.1021/acs.jmedchem.5b01147. Epub, 2015 Sep 4. PMID:26314394
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (128 Kb) [Save to disk]
  • Biological Unit Coordinates (5cg5.pdb1.gz) 243 Kb
  • LPC: Ligand-Protein Contacts for 5CG5
  • CSU: Contacts of Structural Units for 5CG5
  • Structure Factors (1273 Kb)
  • Retrieve 5CG5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5CG5 from S2C, [Save to disk]
  • Re-refined 5cg5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5CG5 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 5CG5
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5cg5_A] [5cg5]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5CG5
  • Community annotation for 5CG5 at PDBWiki (http://pdbwiki.org)

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