2zhg: Difference between revisions

Revision as of 20:12, 4 May 2008

Crystal structure of SoxR in complex with DNA

OverviewOverview

The [2Fe-2S] transcription factor SoxR, a member of the MerR family, functions as a bacterial sensor of oxidative stress such as superoxide and nitric oxide. SoxR is activated by reversible one-electron oxidation of the [2Fe-2S] cluster and then enhances the production of various antioxidant proteins through the soxRS regulon. In the active state, SoxR and other MerR family proteins activate transcription from unique promoters, which have a long 19- or 20-bp spacer between the -35 and -10 operator elements, by untwisting the promoter DNA. Here, we show the crystal structures of SoxR and its complex with the target promoter in the oxidized (active) state. The structures reveal that the [2Fe-2S] cluster of SoxR is completely solvent-exposed and surrounded by an asymmetric environment stabilized by interaction with the other subunit. The asymmetrically charged environment of the [2Fe-2S] cluster probably causes redox-dependent conformational changes of SoxR and the target promoter. Compared with the promoter structures with the 19-bp spacer previously studied, the DNA structure is more sharply bent, by approximately 1 bp, with the two central base pairs holding Watson-Crick base pairs. Comparison of the target promoter sequences of the MerR family indicates that the present DNA structure represents the activated conformation of the target promoter with a 20-bp spacer in the MerR family.

About this StructureAbout this Structure

2ZHG is a Protein complex structure of sequences from Escherichia coli. Full crystallographic information is available from OCA.

ReferenceReference

Crystal structure of the [2Fe-2S] oxidative-stress sensor SoxR bound to DNA., Watanabe S, Kita A, Kobayashi K, Miki K, Proc Natl Acad Sci U S A. 2008 Mar 18;105(11):4121-6. Epub 2008 Mar 11. PMID:18334645 Page seeded by OCA on Sun May 4 20:12:52 2008

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

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 [[Image:2zhg.jpg|left|200px]]
- {{Structure
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+or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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-|GENE= soxR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])
+-->
-|DOMAIN=<span class='plainlinks'>[http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=cd04776 HTH_GnyR], [http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=cd01110 HTH_SoxR]</span>
+{{STRUCTURE_2zhg|  PDB=2zhg  |  SCENE=  }}
-|RELATEDENTRY=[[2zhh|2ZHH]]
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2zhg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zhg OCA], [http://www.ebi.ac.uk/pdbsum/2zhg PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2zhg RCSB]</span>
-}}
 '''Crystal structure of SoxR in complex with DNA'''
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 [[Category: Watanabe, S.]]
 [[Category: 2fe-2]]
-[[Category: activator]]
+[[Category: Activator]]
-[[Category: dna-binding]]
+[[Category: Dna-binding]]
-[[Category: iron]]
+[[Category: Iron]]
-[[Category: iron-sulfur]]
+[[Category: Iron-sulfur]]
-[[Category: merr family]]
+[[Category: Merr family]]
-[[Category: metal-binding]]
+[[Category: Metal-binding]]
-[[Category: oxidative stress]]
+[[Category: Oxidative stress]]
-[[Category: transcription]]
+[[Category: Transcription]]
-[[Category: transcription regulation]]
+[[Category: Transcription regulation]]
-[[Category: transcription/dna complex]]
+[[Category: Transcription/dna complex]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 20:12:52 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:20:57 2008''