1J6X

CRYSTAL STRUCTURE OF HELICOBACTER PYLORI LUXS


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.38 Å
  • R-Value Free: 0.264 
  • R-Value Work: 0.219 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

A structural genomics approach to the study of quorum sensing: crystal structures of three LuxS orthologs.

Lewis, H.A.Furlong, E.B.Laubert, B.Eroshkina, G.A.Batiyenko, Y.Adams, J.M.Bergseid, M.G.Marsh, C.D.Peat, T.S.Sanderson, W.E.Sauder, J.M.Buchanan, S.G.

(2001) Structure 9: 527-537

  • Primary Citation of Related Structures:  1INN, 1J6V, 1J6W, 1VJE

  • PubMed Abstract: 
  • Quorum sensing is the mechanism by which bacteria control gene expression in response to cell density. Two major quorum-sensing systems have been identified, system 1 and system 2, each with a characteristic signaling molecule (autoinducer-1, or AI-1 ...

    Quorum sensing is the mechanism by which bacteria control gene expression in response to cell density. Two major quorum-sensing systems have been identified, system 1 and system 2, each with a characteristic signaling molecule (autoinducer-1, or AI-1, in the case of system 1, and AI-2 in system 2). The luxS gene is required for the AI-2 system of quorum sensing. LuxS and AI-2 have been described in both Gram-negative and Gram-positive bacterial species and have been shown to be involved in the expression of virulence genes in several pathogens.


    Related Citations: 
    • Structural analysis of a set of proteins resulting from a bacterial genomics project
      Badger, J.,Sauder, J.M.,Adams, J.M.,Antonysamy, S.,Bain, K.,Bergseid, M.G.,Buchanan, S.G.,Buchanan, M.D.,Batiyenko, Y.,Christopher, J.A.,Emtage, S.,Eroshkina, A.,Feil, I.,Furlong, E.B.,Gajiwala, K.S.,Gao, X.,He, D.,Hendle, J.,Huber, A.,Hoda, K.,Kearins, P.,Kissinger, C.,Laubert, B.,Lewis, H.A.,Lin, J.,Loomis, K.,Lorimer, D.,Louie, G.,Maletic, M.,Marsh, C.D.,Miller, I.,Molinari, J.,Muller-Dieckmann, H.J.,Newman, J.M.,Noland, B.W.,Pagarigan, B.,Park, F.,Peat, T.S.,Post, K.W.,Radojicic, S.,Ramos, A.,Romero, R.,Rutter, M.E.,Sanderson, W.E.,Schwinn, K.D.,Tresser, J.,Winhoven, J.,Wright, T.A.,Wu, L.,Xu, J.,Harris, T.J.
      (2005) Proteins 60: 787


    Organizational Affiliation

    Structural GenomiX, San Diego, CA 92121, USA. hal_lewis@stromix.com




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
AUTOINDUCER-2 PRODUCTION PROTEIN LUXS
A, B
160Helicobacter pylori (strain J99 / ATCC 700824)Gene Names: luxS
EC: 4.4.1.21
Find proteins for Q9ZMW8 (Helicobacter pylori (strain J99 / ATCC 700824))
Go to UniProtKB:  Q9ZMW8
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A, B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
MET
Query on MET

Download SDF File 
Download CCD File 
A, B
METHIONINE
C5 H11 N O2 S
FFEARJCKVFRZRR-BYPYZUCNSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.38 Å
  • R-Value Free: 0.264 
  • R-Value Work: 0.219 
  • Space Group: P 41 21 2
Unit Cell:
Length (Å)Angle (°)
a = 71.140α = 90.00
b = 71.140β = 90.00
c = 130.140γ = 90.00
Software Package:
Software NamePurpose
SCALEPACKdata scaling
SHARPphasing
CNSrefinement
MAR345data collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2001-06-08
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-10-04
    Type: Refinement description