6C57 Transferase Transferase Inhibitor date Jan 15, 2018
title Crystal Structure Of Mutant Human Geranylgeranyl Pyrophospha Synthase (Y246d) In Complex With Bisphosphonate Inhibitor F
authors J.Park, X.Bin, F.Vincent, Y.S.Tsantrizos, A.M.Berghuis
compound source
Molecule: Geranylgeranyl Pyrophosphate Synthase
Chain: A, B
Synonym: Ggppsase,(2e,6e)-Farnesyl Diphosphate Synthase, Dimethylallyltranstransferase,Farnesyl Diphosphate Synthase Farnesyltranstransferase,Geranylgeranyl Diphosphate Synthas Geranyltranstransferase;
Ec: 2.5.1.-,2.5.1.1,2.5.1.29,2.5.1.10
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ggps1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: I 4 2 2
R_factor 0.198 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
185.450 185.450 114.200 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.50 Å
ligand FV9 enzyme Transferase E.C.2.5.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceUnraveling the Prenylation-Cancer Paradox in Multiple Myeloma with Novel Geranylgeranyl Pyrophosphate Synthase (GGPPS) Inhibitors., Lacbay CM, Waller DD, Park J, Gomez Palou M, Vincent F, Huang XF, Ta V, Berghuis AM, Sebag M, Tsantrizos YS, J Med Chem. 2018 Aug 9;61(15):6904-6917. doi: 10.1021/acs.jmedchem.8b00886. Epub , 2018 Jul 25. PMID:30016091
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (185 Kb) [Save to disk]
  • Biological Unit Coordinates (6c57.pdb1.gz) 177 Kb
  • LPC: Ligand-Protein Contacts for 6C57
  • CSU: Contacts of Structural Units for 6C57
  • Structure Factors (376 Kb)
  • Retrieve 6C57 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6C57 from S2C, [Save to disk]
  • View 6C57 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 6C57
  • 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: [6c57_A] [6c57_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6C57
  • Community annotation for 6C57 at PDBWiki (http://pdbwiki.org)

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