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PDBsum entry 2jml
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Transcription
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PDB id
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2jml
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Contents |
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* Residue conservation analysis
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PDB id:
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Transcription
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Title:
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Solution structure of the n-terminal domain of cara repressor
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Structure:
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DNA binding domain/transcriptional regulator. Chain: a. Fragment: n-terminal domain, residues 1-78. Engineered: yes
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Source:
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Myxococcus xanthus. Organism_taxid: 246197. Strain: dk 1622. Expressed in: escherichia coli bl21(de3). Expression_system_taxid: 469008.
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NMR struc:
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20 models
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Authors:
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M.Jimenez,S.Padmanabhan,C.Gonzalez,M.C.Perez-Marin,M.Elias-Arnanz, F.J.Murillo,M.Rico
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Key ref:
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G.Navarro-Avilés
et al.
(2007).
Structural basis for operator and antirepressor recognition by Myxococcus xanthus CarA repressor.
Mol Microbiol,
63,
980-994.
PubMed id:
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Date:
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20-Nov-06
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Release date:
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13-Feb-07
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PROCHECK
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Headers
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References
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Q1DDV9
(Q1DDV9_MYXXD) -
B12 binding domain/transcriptional regulator, MerR family from Myxococcus xanthus (strain DK1622)
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Seq:
Struc:
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288 a.a.
81 a.a.
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Key: |
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PfamA domain |
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Secondary structure |
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CATH domain |
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Mol Microbiol
63:980-994
(2007)
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PubMed id:
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Structural basis for operator and antirepressor recognition by Myxococcus xanthus CarA repressor.
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G.Navarro-Avilés,
M.A.Jiménez,
M.C.Pérez-Marín,
C.González,
M.Rico,
F.J.Murillo,
M.Elías-Arnanz,
S.Padmanabhan.
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ABSTRACT
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Blue light induces carotenogenesis in Myxococcus xanthus. The carB operon
encodes all but one of the structural genes involved, and its expression is
regulated by the CarA-CarS repressor-antirepressor pair. In the dark,
CarA-operator binding represses carB. CarS, produced on illumination, interacts
physically with CarA to dismantle the CarA-operator complex and activate carB.
Both operator and CarS bind to the autonomously folded N-terminal domain of
CarA, CarA(Nter), which in excess represses carB. Here, we report the NMR
structure of CarA(Nter), and map residues that interact with operator and CarS
by NMR chemical shift perturbations, and in vivo and in vitro analyses of
site-directed mutants. We show CarA(Nter) adopts the winged-helix topology of
MerR-family DNA-binding domains, and conserves the majority of the
helix-turn-helix and wing contacts with DNA. Tellingly, helix alpha2 in CarA, a
key element in operator DNA recognition, is also critical for interaction with
CarS, implying that the CarA-CarS protein-protein and the CarA-operator
protein-DNA interfaces overlap. Thus, binding of CarA to operator and to
antirepressor are mutually exclusive, and CarA may discern structural features
in the acidic CarS protein that resemble operator DNA. Repressor inactivation by
occluding the DNA-binding region may be a recurrent mechanism of action for
acidic antirepressors.
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Literature references that cite this PDB file's key reference
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PubMed id
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Reference
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J.M.Ortiz-Guerrero,
M.C.Polanco,
F.J.Murillo,
S.Padmanabhan,
and
M.Elías-Arnanz
(2011).
Light-dependent gene regulation by a coenzyme B12-based photoreceptor.
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Proc Natl Acad Sci U S A,
108,
7565-7570.
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M.Elías-Arnanz,
S.Padmanabhan,
and
F.J.Murillo
(2011).
Light-dependent gene regulation in nonphototrophic bacteria.
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Curr Opin Microbiol,
14,
128-135.
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E.D.Brutinel,
C.A.Vakulskas,
and
T.L.Yahr
(2010).
ExsD inhibits expression of the Pseudomonas aeruginosa type III secretion system by disrupting ExsA self-association and DNA binding activity.
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J Bacteriol,
192,
1479-1486.
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E.León,
G.Navarro-Avilés,
C.M.Santiveri,
C.Flores-Flores,
M.Rico,
C.González,
F.J.Murillo,
M.Elías-Arnanz,
M.A.Jiménez,
and
S.Padmanabhan
(2010).
A bacterial antirepressor with SH3 domain topology mimics operator DNA in sequestering the repressor DNA recognition helix.
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Nucleic Acids Res,
38,
5226-5241.
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PDB code:
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D.García-Moreno,
M.C.Polanco,
G.Navarro-Avilés,
F.J.Murillo,
S.Padmanabhan,
and
M.Elías-Arnanz
(2009).
A vitamin B12-based system for conditional expression reveals dksA to be an essential gene in Myxococcus xanthus.
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J Bacteriol,
191,
3108-3119.
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N.Tschowri,
S.Busse,
and
R.Hengge
(2009).
The BLUF-EAL protein YcgF acts as a direct anti-repressor in a blue-light response of Escherichia coli.
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Genes Dev,
23,
522-534.
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L.Galbis-Martínez,
M.Galbis-Martínez,
F.J.Murillo,
and
M.Fontes
(2008).
An anti-antisigma factor in the response of the bacterium Myxococcus xanthus to blue light.
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Microbiology,
154,
895-904.
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G.Chen,
P.D.Jeffrey,
C.Fuqua,
Y.Shi,
and
L.Chen
(2007).
Structural basis for antiactivation in bacterial quorum sensing.
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Proc Natl Acad Sci U S A,
104,
16474-16479.
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PDB code:
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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.
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Links
