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Transcription PDB id
1rfy
Jmol
Contents
Protein chains
89 a.a. *
Waters ×230
* Residue conservation analysis
PDB id:
1rfy
Name: Transcription
Title: Crystal structure of quorum-sensing antiactivator tram
Structure: Transcriptional repressor tram. Chain: a, b. Synonym: quorum-sensing antiactivator tram. Tram protein. Engineered: yes
Source: Agrobacterium tumefaciens. Organism_taxid: 358. Gene: tram. Expressed in: escherichia coli. Expression_system_taxid: 562.
Biol. unit: Dimer (from PDB file)
Resolution:
1.60Å     R-factor:   0.202     R-free:   0.222
Authors: G.Chen,J.W.Malenkos,M.R.Cha,C.Fuqua,L.Chen
Key ref: G.Chen et al. (2004). Quorum-sensing antiactivator TraM forms a dimer that dissociates to inhibit TraR. Mol Microbiol, 52, 1641-1651. PubMed id: 15186414 DOI: 10.1111/j.1365-2958.2004.04110.x
Date:
10-Nov-03     Release date:   23-Nov-04    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chains
Pfam   ArchSchema ?
Q57471  (TRAM_RHIRD) -  Transcriptional repressor traM
Seq:
Struc: 		102 a.a.
89 a.a.*
Key:    PfamA domain  Secondary structure
* PDB and UniProt seqs differ at 1 residue position (black cross)

 Gene Ontology (GO) functional annotation 
  GO annot!
  Biological process     conjugation   4 terms 

 

 
DOI no: 10.1111/j.1365-2958.2004.04110.x Mol Microbiol 52:1641-1651 (2004)
PubMed id: 15186414  
 
 
Quorum-sensing antiactivator TraM forms a dimer that dissociates to inhibit TraR.
G.Chen, J.W.Malenkos, M.R.Cha, C.Fuqua, L.Chen.
 
  ABSTRACT  
 
The quorum-sensing transcriptional activator TraR of Agrobacterium tumefaciens, which controls the replication and conjugal transfer of the tumour-inducing (Ti) virulence plasmid, is inhibited by the TraM antiactivator. The crystal structure of TraM reveals this protein to form a homodimer in which the monomer primarily consists of two long coiled alpha-helices, and one of the helices from each monomer also bundles to form the dimeric interface. The importance of dimerization is addressed by mutational studies in which disruption of the hydrophobic dimer interface leads to aggregation of TraM. Biochemical studies confirm that TraM exists as a homodimer in solution in equilibrium with the monomeric form, and also establish that the TraM-TraR complex is a heterodimer. Thus, the TraM homodimer undergoes dissociation in forming the antiactivation complex. Combined with the structure of TraR (Zhang et al., 2002, Nature 417: 971-974; Vannini et al., 2002, EMBO J 21: 4393-4401), our structural analysis suggests overlapping interactive surfaces in homodimeric TraM with those in the TraM-TraR complex and a mechanism for TraM inhibition on TraR.
 

Literature references that cite this PDB file's key reference

  PubMed id Reference
21392132 Q.Seet, and L.H.Zhang (2011).
Anti-activator QslA defines the quorum sensing threshold and response in Pseudomonas aeruginosa.
  Mol Microbiol, 80, 951-965.  
19369699 J.Thibault, E.Faudry, C.Ebel, I.Attree, and S.Elsen (2009).
Anti-activator ExsD forms a 1:1 complex with ExsA to inhibit transcription of type III secretion operons.
  J Biol Chem, 284, 15762-15770.  
19329639 Y.Chai, and S.C.Winans (2009).
The chaperone GroESL enhances the accumulation of soluble, active TraR protein, a quorum-sensing transcription factor from Agrobacterium tumefaciens.
  J Bacteriol, 191, 3706-3711.  
18456806 S.B.von Bodman, J.M.Willey, and S.P.Diggle (2008).
Cell-cell communication in bacteria: united we stand.
  J Bacteriol, 190, 4377-4391.  
17360279 C.E.White, and S.C.Winans (2007).
Cell-cell communication in the plant pathogen Agrobacterium tumefaciens.
  Philos Trans R Soc Lond B Biol Sci, 362, 1135-1148.  
17921255 G.Chen, P.D.Jeffrey, C.Fuqua, Y.Shi, and L.Chen (2007).
Structural basis for antiactivation in bacterial quorum sensing.
  Proc Natl Acad Sci U S A, 104, 16474-16479.
PDB code: 2q0o
17360278 M.Sanchez-Contreras, W.D.Bauer, M.Gao, J.B.Robinson, and J.Allan Downie (2007).
Quorum-sensing regulation in rhizobia and its role in symbiotic interactions with legumes.
  Philos Trans R Soc Lond B Biol Sci, 362, 1149-1163.  
17475619 Y.Qin, S.Su, and S.K.Farrand (2007).
Molecular basis of transcriptional antiactivation. TraM disrupts the TraR-DNA complex through stepwise interactions.
  J Biol Chem, 282, 19979-19991.  
16547030 C.Wang, H.B.Zhang, G.Chen, L.Chen, and L.H.Zhang (2006).
Dual control of quorum sensing by two TraM-type antiactivators in Agrobacterium tumefaciens octopine strain A6.
  J Bacteriol, 188, 2435-2445.  
16997969 G.Chen, C.Wang, C.Fuqua, L.H.Zhang, and L.Chen (2006).
Crystal structure and mechanism of TraM2, a second quorum-sensing antiactivator of Agrobacterium tumefaciens strain A6.
  J Bacteriol, 188, 8244-8251.
PDB code: 2hjd
17158701 J.E.González, and N.D.Keshavan (2006).
Messing with bacterial quorum sensing.
  Microbiol Mol Biol Rev, 70, 859-875.  
16170413 A.B.Goryachev, D.J.Toh, K.B.Wee, T.Lee, H.B.Zhang, and L.H.Zhang (2005).
Transition to quorum sensing in an Agrobacterium population: A stochastic model.
  PLoS Comput Biol, 1, e37.  
16195384 H.Cho, and S.C.Winans (2005).
VirA and VirG activate the Ti plasmid repABC operon, elevating plasmid copy number in response to wound-released chemical signals.
  Proc Natl Acad Sci U S A, 102, 14843-14848.  
The most recent references are shown first. Citation data come partly from CiteXplore and partly from an automated harvesting procedure. Note that this is likely to be only a partial list as not all journals are covered by either method. However, we are continually building up the citation data so more and more references will be included with time. Where a reference describes a PDB structure, the PDB code is shown on the right.