6jhe

From Proteopedia

(Difference between revisions)

Current revision

Crystal Structure of Bacillus subtilis SigW domain 4 in complexed with -35 element DNA

Structural highlights

6jhe is a 3 chain structure with sequence from Bacillus subtilis subsp. subtilis str. 168 and Synthetic construct. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 3.101Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

SIGW_BACSU Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. Extracytoplasmic function (ECF) sigma factors are held in an inactive form by a cognate anti-sigma factor (RsiW for this protein) until released by regulated membrane proteolysis. Sigma-W controls genes involved in transport processes and detoxification.^[1] ^[2]

Publication Abstract from PubMed

Sigma factors are key proteins that mediate the recruitment of RNA polymerase to the promoter regions of genes, for the initiation of bacterial transcription. Multiple sigma factors in a bacterium selectively recognize their cognate promoter sequences, thereby inducing the expression of their own regulons. In this paper, we report the crystal structure of the sigma4 domain of Bacillus subtilis SigW bound to the -35 promoter element. Purine-specific hydrogen bonds of the -35 promoter element with the recognition helix alpha9 of the sigma4 domain occurs at three nucleotides of the consensus sequence (G-35, A-34, and G'-31 in G-35A-34A-33A-32C-31C-30T-29). The hydrogen bonds of the backbone with the alpha7 and alpha8 of the sigma4 domain occurs at G'-30. These results elucidate the structural basis of the selective recognition of the promoter by SigW. In addition, comparison of SigW structures complexed with the -35 promoter element or with anti-sigma RsiW reveals that DNA recognition and anti-sigma factor binding of SigW are mutually exclusive.

Structural analysis of the recognition of the -35 promoter element by SigW from Bacillus subtilis.,Kwon E, Devkota SR, Pathak D, Dahal P, Kim DY PLoS One. 2019 Aug 28;14(8):e0221666. doi: 10.1371/journal.pone.0221666., eCollection 2019. PMID:31461489^[3]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Helmann JD. The extracytoplasmic function (ECF) sigma factors. Adv Microb Physiol. 2002;46:47-110. PMID:12073657
↑ Jung YG, Cho YB, Kim MS, Yoo JS, Hong SH, Roe JH. Determinants of redox sensitivity in RsrA, a zinc-containing anti-sigma factor for regulating thiol oxidative stress response. Nucleic Acids Res. 2011 Sep 1;39(17):7586-97. doi: 10.1093/nar/gkr477. Epub 2011 , Jun 17. PMID:21685450 doi:http://dx.doi.org/10.1093/nar/gkr477
↑ Kwon E, Devkota SR, Pathak D, Dahal P, Kim DY. Structural analysis of the recognition of the -35 promoter element by SigW from Bacillus subtilis. PLoS One. 2019 Aug 28;14(8):e0221666. doi: 10.1371/journal.pone.0221666., eCollection 2019. PMID:31461489 doi:http://dx.doi.org/10.1371/journal.pone.0221666

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/6jhe"

@@ Line 3: / Line 3: @@
 <StructureSection load='6jhe' size='340' side='right'caption='[[6jhe]], [[Resolution|resolution]] 3.10&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6jhe]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JHE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6JHE FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6jhe]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis_subsp._subtilis_str._168 Bacillus subtilis subsp. subtilis str. 168] 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=6JHE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6JHE FirstGlance]. <br>
-</td></tr><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=6jhe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jhe OCA], [http://pdbe.org/6jhe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6jhe RCSB], [http://www.ebi.ac.uk/pdbsum/6jhe PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6jhe ProSAT]</span></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.101&#8491;</td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=6jhe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jhe OCA], [https://pdbe.org/6jhe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6jhe RCSB], [https://www.ebi.ac.uk/pdbsum/6jhe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6jhe ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/SIGW_BACSU SIGW_BACSU]] Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. Extracytoplasmic function (ECF) sigma factors are held in an inactive form by a cognate anti-sigma factor (RsiW for this protein) until released by regulated membrane proteolysis. Sigma-W controls genes involved in transport processes and detoxification.<ref>PMID:12073657</ref> <ref>PMID:21685450</ref>
+[https://www.uniprot.org/uniprot/SIGW_BACSU SIGW_BACSU] Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. Extracytoplasmic function (ECF) sigma factors are held in an inactive form by a cognate anti-sigma factor (RsiW for this protein) until released by regulated membrane proteolysis. Sigma-W controls genes involved in transport processes and detoxification.<ref>PMID:12073657</ref> <ref>PMID:21685450</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 17: / Line 18: @@
 </div>
 <div class="pdbe-citations 6jhe" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Sigma factor 3D structures|Sigma factor 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
+[[Category: Bacillus subtilis subsp. subtilis str. 168]]
 [[Category: Large Structures]]
-[[Category: Dahal, P]]
+[[Category: Synthetic construct]]
-[[Category: Devkota, S R]]
+[[Category: Dahal P]]
-[[Category: Kim, D Y]]
+[[Category: Devkota SR]]
-[[Category: Kwon, E]]
+[[Category: Kim DY]]
-[[Category: Pathak, D]]
+[[Category: Kwon E]]
-[[Category: Helix-turn-helix]]
+[[Category: Pathak D]]
-[[Category: Protein-dna complex]]
-[[Category: Transcription-dna complex]]

6jhe

From Proteopedia

Current revision

Crystal Structure of Bacillus subtilis SigW domain 4 in complexed with -35 element DNA

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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