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5z7i

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Current revision (10:26, 27 March 2024) (edit) (undo)
 
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==Caulobacter crescentus GcrA DNA-binding domain(DBD)in complex with unmethylated dsDNA==
==Caulobacter crescentus GcrA DNA-binding domain(DBD)in complex with unmethylated dsDNA==
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<StructureSection load='5z7i' size='340' side='right' caption='[[5z7i]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
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<StructureSection load='5z7i' size='340' side='right'caption='[[5z7i]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[5z7i]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Cauvn Cauvn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Z7I OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Z7I FirstGlance]. <br>
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<table><tr><td colspan='2'>[[5z7i]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Caulobacter_vibrioides_NA1000 Caulobacter vibrioides NA1000] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Z7I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5Z7I FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BU3:(R,R)-2,3-BUTANEDIOL'>BU3</scene></td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.601&#8491;</td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">gcrA, CCNA_02328 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=565050 CAUVN])</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BU3:(R,R)-2,3-BUTANEDIOL'>BU3</scene></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5z7i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5z7i OCA], [http://pdbe.org/5z7i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5z7i RCSB], [http://www.ebi.ac.uk/pdbsum/5z7i PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5z7i ProSAT]</span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5z7i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5z7i OCA], [https://pdbe.org/5z7i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5z7i RCSB], [https://www.ebi.ac.uk/pdbsum/5z7i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5z7i ProSAT]</span></td></tr>
</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/A0A0H3C9J4_CAUVN A0A0H3C9J4_CAUVN]
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Canonical bacterial transcription activators bind to non-transcribed promoter elements to increase transcription of their target genes. Here we report crystal structures of binary complexes comprising domains of Caulobacter crescentus GcrA, a noncanonical bacterial transcription factor, that support a novel mechanism for transcription activation through the preferential binding of methylated cis-regulatory elements and the promotion of open complex formation through an interaction with region 2 of the principal sigma factor, sigma70. We present crystal structures of the C-terminal, sigma factor-interacting domain (GcrA-SID) in complex with domain 2 of sigma70 (sigma702), and the N-terminal, DNA-binding domain (GcrA-DBD) in complex with methylated double-stranded DNA (dsDNA). The structures reveal interactions essential for transcription activation and DNA recognition by GcrA. These structures, along with mutational analyses, support a mechanism of transcription activation in which GcrA associates with RNA polymerase (RNAP) prior to promoter binding through GcrA-SID, arming RNAP with a flexible GcrA-DBD. The RNAP-GcrA complex then binds and activates target promoters harboring a methylated GcrA binding site either upstream or downstream of the transcription start site.
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Structural insights into the unique mechanism of transcription activation by Caulobacter crescentus GcrA.,Wu X, Haakonsen DL, Sanderlin AG, Liu YJ, Shen L, Zhuang N, Laub MT, Zhang Y Nucleic Acids Res. 2018 Mar 5. pii: 4920855. doi: 10.1093/nar/gky161. PMID:29514271<ref>PMID:29514271</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 5z7i" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Cauvn]]
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[[Category: Caulobacter vibrioides NA1000]]
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[[Category: Wu, X]]
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[[Category: Large Structures]]
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[[Category: Zhang, Y]]
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[[Category: Synthetic construct]]
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[[Category: Caulobacter crescentus]]
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[[Category: Wu X]]
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[[Category: Dna binding protein]]
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[[Category: Zhang Y]]
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[[Category: Dna binding protein-dna complex]]
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[[Category: Dna-binding]]
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[[Category: Gcra]]
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[[Category: Transcription factor]]
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Current revision

Caulobacter crescentus GcrA DNA-binding domain(DBD)in complex with unmethylated dsDNA

PDB ID 5z7i

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