Crystal structure of a autoinducer-2 synthesis protein with bound selenomethionine

Experimental Data Snapshot

  • Resolution: 1.64 Å
  • R-Value Free: 0.215 
  • R-Value Work: 0.188 

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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

  • DOI: https://doi.org/10.1016/s0969-2126(01)00613-x
  • Primary Citation of Related Structures:  
    1INN, 1J6V, 1J6W, 1J6X, 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, 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. The structure of the LuxS protein from three different bacterial species with resolutions ranging from 1.8 A to 2.4 A has been solved using an X-ray crystallographic structural genomics approach. The structure of LuxS reported here is seen to have a new alpha-beta fold. In all structures, an equivalent homodimer is observed. A metal ion identified as zinc was seen bound to a Cys-His-His triad. Methionine was found bound to the protein near the metal and at the dimer interface. These structures provide support for a hypothesis that explains the in vivo action of LuxS. Specifically, acting as a homodimer, the protein binds a methionine analog, S-ribosylhomocysteine (SRH). The zinc atom is in position to cleave the ribose ring in a step along the synthesis pathway of AI-2.

  • Organizational Affiliation

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

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Autoinducer-2 production protein LuxS
A, B
166Deinococcus radioduransMutation(s): 1 
Gene Names: LUXSDR2387
EC: 3.13.1
Find proteins for Q9RRU8 (Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / CCUG 27074 / LMG 4051 / NBRC 15346 / NCIMB 9279 / VKM B-1422 / R1))
Explore Q9RRU8 
Go to UniProtKB:  Q9RRU8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9RRU8
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 1.64 Å
  • R-Value Free: 0.215 
  • R-Value Work: 0.188 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 43.548α = 90
b = 81.917β = 102.81
c = 49.327γ = 90
Software Package:
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
TRUNCATEdata reduction
CCP4data scaling
TRUNCATEdata scaling

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2004-02-10
    Type: Initial release
  • Version 1.1: 2008-04-26
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2017-10-04
    Changes: Refinement description
  • Version 1.4: 2023-12-27
    Changes: Data collection, Database references, Derived calculations