5DGM	Transferase	date	Aug 28, 2015
title	Crystal Structure Of Human Fpps In Complex With Monophosphon Compound 7
authors	J.M.Rondeau, E.Bourgier, S.Lehmann
compound		source
Molecule: Farnesyl Pyrophosphate Synthase Chain: F Fragment: Residues 72-419 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 Bl21(De3) Expression_system_taxid: 469008 Expression_system_variant: Tuner Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28
symmetry	Space Group: P 41 21 2	R_factor 0.185 R_Free 0.227
crystal cell	length a length b length c angle alpha angle beta angle gamma 110.723 110.723 76.775 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.86 Å
ligand	59Z, PO4	enzyme	Transferase E.C.2.5.1.10 BRENDA
Gene Ontology	Chain Function Process Component F
Primary reference	Allosteric non-bisphosphonate FPPS inhibitors identified by fragment-based discovery., Jahnke W, Rondeau JM, Cotesta S, Marzinzik A, Pelle X, Geiser M, Strauss A, Gotte M, Bitsch F, Hemmig R, Henry C, Lehmann S, Glickman JF, Roddy TP, Stout SJ, Green JR, Nat Chem Biol. 2010 Sep;6(9):660-6. Epub 2010 Aug 15. PMID:20711197

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (125 Kb) [Save to disk] Biological Unit Coordinates (5dgm.pdb1.gz) 240 Kb LPC: Ligand-Protein Contacts for 5DGM CSU: Contacts of Structural Units for 5DGM Structure Factors (98 Kb) Retrieve 5DGM in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5DGM from S2C, [Save to disk] Re-refined 5dgm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5DGM 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 5DGM

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

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5dgm] [5dgm_F] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 5DGM

Community annotation for 5DGM at PDBWiki (http://pdbwiki.org)

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