3KE1 Lyase date Oct 23, 2009
title Crystal Structure Of 2c-Methyl-D-Erythritol 2,4-Cyclodiphosp Synthase From Burkholderia Pseudomallei In Complex With A F Nucleoside Fusion D000161829
authors Seattle Structural Genomics Center For Infectious Disease (S
compound source
Molecule: 2-C-Methyl-D-Erythritol 2,4-Cyclodiphosphate Synt
Chain: A, B, C
Synonym: Mecps, Mecdp-Synthase
Ec: 4.6.1.12
Engineered: Yes
Organism_scientific: Burkholderia Pseudomallei
Organism_common: Pseudomonas Pseudomallei
Organism_taxid: 28450
Strain: 1710b
Gene: Ispf, Mecs, Bpsl2098
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Ava0421
symmetry Space Group: C 1 2 1
R_factor 0.184 R_Free 0.221
crystal
cell
length a length b length c angle alpha angle beta angle gamma
117.083 66.964 59.166 90.00 95.42 90.00
method X-Ray Diffractionresolution 2.05 Å
ligand 829, K, ZN enzyme Lyase E.C.4.6.1.12 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C, B


Primary referenceCytidine derivatives as IspF inhibitors of Burkolderia pseudomallei., Zhang Z, Jakkaraju S, Blain J, Gogol K, Zhao L, Hartley RC, Karlsson CA, Staker BL, Edwards TE, Stewart LJ, Myler PJ, Clare M, Begley DW, Horn JR, Hagen TJ, Bioorg Med Chem Lett. 2013 Dec 15;23(24):6860-3. doi: 10.1016/j.bmcl.2013.09.101., Epub 2013 Oct 8. PMID:24157367
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (76 Kb) [Save to disk]
  • Biological Unit Coordinates (3ke1.pdb1.gz) 69 Kb
  • LPC: Ligand-Protein Contacts for 3KE1
  • CSU: Contacts of Structural Units for 3KE1
  • Structure Factors (438 Kb)
  • Retrieve 3KE1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3KE1 from S2C, [Save to disk]
  • Re-refined 3ke1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3KE1 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 3KE1
  • 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 3KE1, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ke1] [3ke1_A] [3ke1_B] [3ke1_C]
  • SWISS-PROT database: [Q3JRA0]
  • Domain organization of [ISPF_BURP1] by SWISSPFAM
  • Other resources with information on 3KE1
  • Community annotation for 3KE1 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science