3LDW Transferase date Jan 13, 2010
title Crystal Structure Of Plasmodium Vivax Geranylgeranylpyrophos Synthase Pvx_092040 With Zoledronate And Ipp Bound
authors A.K.Wernimont, J.Lew, Y.Zhao, I.Kozieradzki, D.Cossar, M.Schapira A.Bochkarev, C.H.Arrowsmith, C.Bountra, J.Weigelt, A.M.Edwards, J.D.Artz, Structural Genomics Consortium (Sgc)
compound source
Molecule: Farnesyl Pyrophosphate Synthase
Chain: A, B, C, D
Engineered: Yes
Organism_scientific: Plasmodium Vivax
Organism_taxid: 126793
Strain: Salvador I
Gene: Pvx_092040
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Dh5a
Expression_system_vector_type: Plasmid
Expression_system_plasmid: P15-Tev-Lic
symmetry Space Group: P 21 21 21
R_factor 0.239 R_Free 0.286
crystal
cell
length a length b length c angle alpha angle beta angle gamma
111.264 139.543 109.711 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.47 Å
ligand EDO, GOL, IPE, MG, ZOL enzyme
Gene PVX
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceMolecular characterization of a novel geranylgeranyl pyrophosphate synthase from Plasmodium parasites., Artz JD, Wernimont AK, Dunford JE, Schapira M, Dong A, Zhao Y, Lew J, Russell RG, Ebetino FH, Oppermann U, Hui R, J Biol Chem. 2010 Nov 17. PMID:21084289
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (254 Kb) [Save to disk]
  • Biological Unit Coordinates (3ldw.pdb1.gz) 125 Kb
  • Biological Unit Coordinates (3ldw.pdb2.gz) 125 Kb
  • LPC: Ligand-Protein Contacts for 3LDW
  • CSU: Contacts of Structural Units for 3LDW
  • Structure Factors (1319 Kb)
  • Retrieve 3LDW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3LDW from S2C, [Save to disk]
  • Re-refined 3ldw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3LDW 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 3LDW
  • 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 3LDW, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ldw] [3ldw_D] [3ldw_C] [3ldw_B] [3ldw_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3LDW
  • Community annotation for 3LDW 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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