PDBsum entry: 1lj9

Transcription

PDB-id

1lj9


	Biological unit* = asymmetric unit, as shown (as deduced by PQS*)

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Description

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Protein chains

Waters ×289

* Residue conservation analysis

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PDB id:

1lj9

Name:

Transcription

Title:

The crystal structure of the transcriptional regulator slya

Structure:

Transcriptional regulator slya. Chain: a, b. Engineered: yes

Source:

Enterococcus faecalis. Organism_taxid: 1351. Gene: ref02436. Expressed in: escherichia coli. Expression_system_taxid: 562.

Biological unit:

Dimer (from PQS)

UniProt:

Chains A, B: Q82ZP8 (Q82ZP8_ENTFA)

Seq:

150 a.a.

Struc:

144 a.a.

Key:		PfamA domain
		Secondary structure			CATH domain

Resolution:

1.60Å

R-factor:

0.248

R-free:

0.275

Authors:

R.Y.Wu,R.G.Zhang,P.Gornicki,A.Joachimiak,Midwest Center For Structural Genomics (Mcsg)

Key ref:

R.Y.Wu et al. (2003). Crystal structure of Enterococcus faecalis SlyA-like transcriptional factor.. J Biol Chem, 278, 20240-20244. [PubMed id: 12649270] [DOI: 10.1074/jbc.M300292200]

Date:

19-Apr-02

Release date:

21-Jan-03

Related entries:

Apc100 related db: targetdb

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Key reference

DOI no: 10.1074/jbc.M300292200 J Biol Chem 278:20240-20244 (2003)

PubMed id: 12649270

Crystal structure of Enterococcus faecalis SlyA-like transcriptional factor.

R.Y.Wu, R.G.Zhang, O.Zagnitko, I.Dementieva, N.Maltzev, J.D.Watson, R.Laskowski, P.Gornicki, A.Joachimiak.

ABSTRACT

The crystal structure of a SlyA transcriptional regulator at 1.6 A resolution is presented, and structural relationships between members of the MarR/SlyA family are discussed. The SlyA family, which includes SlyA, Rap, Hor, and RovA proteins, is widely distributed in bacterial and archaeal genomes. Current evidence suggests that SlyA-like factors act as repressors, activators, and modulators of gene transcription. These proteins have been shown to up-regulate the expression of molecular chaperones, acid-resistance proteins, and cytolysin, and down-regulate several biosynthetic enzymes. The structure of SlyA from Enterococcus faecalis, determined as a part of an ongoing structural genomics initiative (www.mcsg.anl.gov), revealed the same winged helix DNA-binding motif that was recently found in the MarR repressor from Escherichia coli and the MexR repressor from Pseudomonas aeruginosa, a sequence homologue of MarR. Phylogenetic analysis of the MarR/SlyA family suggests that Sly is placed between the SlyA and MarR subfamilies and shows significant sequence similarity to members of both subfamilies.

Selected figure(s)

Figure 3.
FIG. 3. Secondary and domain structure of SlyA-Ef. A, secondary structure of SlyA-Ef. b, SlyA-Ef dimerization domain showing domain swapping. c, DNA-binding domain with winged helix motif. Drawings prepared with WebLabViewerPro. Figure 4.
FIG. 4. Comparison of the SlyA-Ef structure with the structures of MarR and MexR. a, superimposition of SlyA-Ef (blue) on MarR (red) subunits. b, superimposition of the SlyA-Ef (blue) and MexR (red) structures.

The above figures are reprinted by permission from the ASBMB: J Biol Chem (2003, 278, 20240-20244) copyright 2003.

Figures were selected by an automated process.

Literature references that cite this PDB file's key reference

PubMed id Reference

19255465 C.E.Nichols, S.Sainsbury, J.Ren, T.S.Walter, A.Verma, D.K.Stammers, N.J.Saunders, and R.J.Owens (2009).
The structure of NMB1585, a MarR-family regulator from Neisseria meningitidis.

Acta Crystallogr Sect F Struct Biol Cryst Commun, 65, 204-209.

PDB code: 3g3z

19114478 P.Xue, D.Corbett, M.Goldrick, C.Naylor, and I.S.Roberts (2009).
Regulation of expression of the region 3 promoter of the Escherichia coli K5 capsule gene cluster involves H-NS, SlyA, and a large 5' untranslated region.

J Bacteriol, 191, 1838-1846.

19509310 T.Kumarevel, T.Tanaka, T.Umehara, and S.Yokoyama (2009).
ST1710-DNA complex crystal structure reveals the DNA binding mechanism of the MarR family of regulators.

Nucleic Acids Res, 37, 4723-4735.

PDB codes: 3gez 3gf2 3gfi 3gfj 3gfl 3gfm

17322537 E.A.Sieminska, X.Xu, A.Savchenko, and D.A.Sanders (2007).
The X-ray crystal structure of PA1607 from Pseudomonas aureginosa at 1.9 A resolution--a putative transcription factor.

Protein Sci, 16, 543-549.

PDB code: 2f2e

17892462 J.K.Lithgow, F.Haider, I.S.Roberts, and J.Green (2007).
Alternate SlyA and H-NS nucleoprotein complexes control hlyE expression in Escherichia coli K-12.

Mol Microbiol, 66, 685-698.

16862595 K.H.Chin, Z.L.Tu, J.N.Li, C.C.Chou, A.H.Wang, and S.H.Chou (2006).
The crystal structure of XC1739: a putative multiple antibiotic-resistance repressor (MarR) from Xanthomonas campestris at 1.8 A resolution.

Proteins, 65, 239-242.

PDB code: 2fa5

16452421 W.Panmanee, P.Vattanaviboon, L.B.Poole, and S.Mongkolsuk (2006).
Novel organic hydroperoxide-sensing and responding mechanisms for OhrR, a major bacterial sensor and regulator of organic hydroperoxide stress.

J Bacteriol, 188, 1389-1395.

16287087 Y.Qiu, V.Tereshko, Y.Kim, R.Zhang, F.Collart, M.Yousef, A.Kossiakoff, and A.Joachimiak (2006).
The crystal structure of Aq_328 from the hyperthermophilic bacteria Aquifex aeolicus shows an ancestral histone fold.

Proteins, 62, 8.

PDB code: 1r4v

15731069 M.J.Ferrándiz, K.Bishop, P.Williams, and H.Withers (2005).
HosA, a member of the SlyA family, regulates motility in enteropathogenic Escherichia coli.

Infect Immun, 73, 1684-1694.

15813739 W.W.Navarre, T.A.Halsey, D.Walthers, J.Frye, M.McClelland, J.L.Potter, L.J.Kenney, J.S.Gunn, F.C.Fang, and S.J.Libby (2005).
Co-regulation of Salmonella enterica genes required for virulence and resistance to antimicrobial peptides by SlyA and PhoP/PhoQ.

Mol Microbiol, 56, 492-508.

15353566 D.Tropel, and J.R.van der Meer (2004).
Bacterial transcriptional regulators for degradation pathways of aromatic compounds.

Microbiol Mol Biol Rev, 68, 474-500.

15225309 G.Kovacikova, W.Lin, and K.Skorupski (2004).
Vibrio cholerae AphA uses a novel mechanism for virulence gene activation that involves interaction with the LysR-type regulator AphB at the tcpPH promoter.

Mol Microbiol, 53, 129-142.

15374664 M.A.Prieto, B.Galán, B.Torres, A.Ferrández, C.Fernández, B.Miñambres, J.L.García, and E.Díaz (2004).
Aromatic metabolism versus carbon availability: the regulatory network that controls catabolism of less-preferred carbon sources in Escherichia coli.

FEMS Microbiol Rev, 28, 503-518.

14996792 N.R.Wyborn, M.R.Stapleton, V.A.Norte, R.E.Roberts, J.Grafton, and J.Green (2004).
Regulation of Escherichia coli hemolysin E expression by H-NS and Salmonella SlyA.

J Bacteriol, 186, 1620-1628.

15479795 P.Kraft, A.Oeckinghaus, D.Kümmel, G.H.Gauss, J.Gilmore, B.Wiedenheft, M.Young, and C.M.Lawrence (2004).
Crystal structure of F-93 from Sulfolobus spindle-shaped virus 1, a winged-helix DNA binding protein.

J Virol, 78, 11544-11550.

PDB code: 1tbx

14602920 B.Galán, A.Kolb, J.M.Sanz, J.L.García, and M.A.Prieto (2003).
Molecular determinants of the hpa regulatory system of Escherichia coli: the HpaR repressor.

Nucleic Acids Res, 31, 6598-6609.

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.