2PD4 Oxidoreductase date Mar 31, 2007
title Crystal Structure Of The Helicobacter Pylori Enoyl-Acyl Carr Protein Reductase In Complex With Hydroxydiphenyl Ether Com Triclosan And Diclosan
authors H.H.Lee, J.H.Moon, S.W.Suh
compound source
Molecule: Enoyl-[Acyl-Carrier-Protein] Reductase [Nadh]
Chain: A, B, C, D
Synonym: Enoyl-Acyl Carrier Protein Reductase, Nadh- Depend Acp Reductase;
Ec: 1.3.1.9
Engineered: Yes
Organism_scientific: Helicobacter Pylori
Organism_taxid: 210
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-22b(+)
symmetry Space Group: P 1 21 1
R_factor 0.224 R_Free 0.248
crystal
cell
length a length b length c angle alpha angle beta angle gamma
73.253 95.072 75.019 90.00 106.53 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand DCN, NAD enzyme Oxidoreductase E.C.1.3.1.9 BRENDA
note 2PD4 supersedes 1JW7
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceCrystal structure of the Helicobacter pylori enoyl-acyl carrier protein reductase in complex with hydroxydiphenyl ether compounds, triclosan and diclosan., Lee HH, Moon J, Suh SW, Proteins. 2007 Nov 15;69(3):691-4. PMID:17879346
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (180 Kb) [Save to disk]
  • Biological Unit Coordinates (2pd4.pdb1.gz) 174 Kb
  • LPC: Ligand-Protein Contacts for 2PD4
  • CSU: Contacts of Structural Units for 2PD4
  • Likely Quarternary Molecular Structure file(s) for 2PD4
  • Structure Factors (316 Kb)
  • Retrieve 2PD4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2PD4 from S2C, [Save to disk]
  • Re-refined 2pd4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2PD4 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 2PD4
  • 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 2PD4, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2pd4_D] [2pd4_B] [2pd4_C] [2pd4] [2pd4_A]
  • SWISS-PROT database: [O24990]
  • Domain organization of [FABI_HELPY] by SWISSPFAM
  • Other resources with information on 2PD4
  • Community annotation for 2PD4 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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