2E9D Transferase date Jan 24, 2007
title E. Coli Undecaprenyl Pyrophosphate Synthase In Complex With
authors R.T.Guo, R.Cao, T.P.Ko, P.H.Liang, E.Oldfield, A.H.J.Wang
compound source
Molecule: Undecaprenyl Pyrophosphate Synthetase
Chain: A, B
Synonym: Upp Synthetase, Di-Trans,Poly-Cis-Decaprenylcistra Undecaprenyl Diphosphate Synthase, Uds;
Ec: 2.5.1.31
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21 (De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet32lic
symmetry Space Group: P 21 21 21
R_factor 0.224 R_Free 0.284
crystal
cell
length a length b length c angle alpha angle beta angle gamma
62.973 68.290 110.234 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand B76 enzyme Transferase E.C.2.5.1.31 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceBisphosphonates target multiple sites in both cis- and trans-prenyltransferases., Guo RT, Cao R, Liang PH, Ko TP, Chang TH, Hudock MP, Jeng WY, Chen CK, Zhang Y, Song Y, Kuo CJ, Yin F, Oldfield E, Wang AH, Proc Natl Acad Sci U S A. 2007 May 29;. PMID:17535895
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (80 Kb) [Save to disk]
  • Biological Unit Coordinates (2e9d.pdb1.gz) 75 Kb
  • LPC: Ligand-Protein Contacts for 2E9D
  • CSU: Contacts of Structural Units for 2E9D
  • Likely Quarternary Molecular Structure file(s) for 2E9D
  • Structure Factors (156 Kb)
  • Retrieve 2E9D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2E9D from S2C, [Save to disk]
  • Re-refined 2e9d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2E9D 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 2E9D
  • 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 2E9D, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2e9d_B] [2e9d_A] [2e9d]
  • SWISS-PROT database: [P60472]
  • Domain organization of [UPPS_ECOLI] by SWISSPFAM
  • Other resources with information on 2E9D
  • Community annotation for 2E9D 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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