6g1d - Revision history

OCA at 08:56, 19 December 2018

OCA — Wed, 19 Dec 2018 08:56:53 GMT

←Older revision		Revision as of 08:56, 19 December 2018
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	<StructureSection load='6g1d' size='340' side='right' caption='[[6g1d]], [[Resolution\|resolution]] 1.99Å' scene=''>		<StructureSection load='6g1d' size='340' side='right' caption='[[6g1d]], [[Resolution\|resolution]] 1.99Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6g1d]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6G1D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6G1D FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6g1d]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"micrococcus_glutamicus"_kinoshita_et_al._1958 "micrococcus glutamicus" kinoshita et al. 1958]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6G1D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6G1D FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=FOR:FORMYL+GROUP'>FOR</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=FOR:FORMYL+GROUP'>FOR</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">C0I99_13405 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1718 "Micrococcus glutamicus" Kinoshita et al. 1958])</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=6g1d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6g1d OCA], [http://pdbe.org/6g1d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6g1d RCSB], [http://www.ebi.ac.uk/pdbsum/6g1d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6g1d ProSAT]</span></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=6g1d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6g1d OCA], [http://pdbe.org/6g1d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6g1d RCSB], [http://www.ebi.ac.uk/pdbsum/6g1d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6g1d ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Micrococcus glutamicus kinoshita et al. 1958]]
	[[Category: Messens, J M]]		[[Category: Messens, J M]]
	[[Category: Pedre, B P]]		[[Category: Pedre, B P]]

OCA at 06:36, 5 December 2018

OCA — Wed, 05 Dec 2018 06:36:52 GMT

←Older revision		Revision as of 06:36, 5 December 2018
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-	'''Unreleased structure'''

-	~~The entry~~ 6g1d is ~~ON HOLD~~	+	==Corynebacterium glutamicum OxyR C206 mutant==
		+	<StructureSection load='6g1d' size='340' side='right' caption='[[6g1d]], [[Resolution\|resolution]] 1.99Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6g1d]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6G1D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6G1D FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=FOR:FORMYL+GROUP'>FOR</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=6g1d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6g1d OCA], [http://pdbe.org/6g1d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6g1d RCSB], [http://www.ebi.ac.uk/pdbsum/6g1d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6g1d ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Hydrogen peroxide (H2O2) is a strong oxidant capable of oxidizing cysteinyl thiolates, yet only a few cysteine-containing proteins have exceptional reactivity toward H2O2 One such example is the prokaryotic transcription factor OxyR, which controls the antioxidant response in bacteria, and which specifically and rapidly reduces H2O2 In this study, we present crystallographic evidence for the H2O2-sensing mechanism and H2O2-dependent structural transition of Corynebacterium glutamicum OxyR by capturing the reduced and H2O2-bound structures of a serine mutant of the peroxidatic cysteine, and the full-length crystal structure of disulfide-bonded oxidized OxyR. In the H2O2-bound structure, we pinpoint the key residues for the peroxidatic reduction of H2O2, and relate this to mutational assays showing that the conserved active-site residues T107 and R278 are critical for effective H2O2 reduction. Furthermore, we propose an allosteric mode of structural change, whereby a localized conformational change arising from H2O2-induced intramolecular disulfide formation drives a structural shift at the dimerization interface of OxyR, leading to overall changes in quaternary structure and an altered DNA-binding topology and affinity at the catalase promoter region. This study provides molecular insights into the overall OxyR transcription mechanism regulated by H2O2.

-	~~Authors:~~ Young, D~~.R.~~, ~~Pedre~~, ~~B.P.~~, ~~Messens~~, J.M.	+	Structural snapshots of OxyR reveal the peroxidatic mechanism of H2O2 sensing.,Pedre B, Young D, Charlier D, Mourenza A, Rosado LA, Marcos-Pascual L, Wahni K, Martens E, G de la Rubia A, Belousov VV, Mateos LM, Messens J Proc Natl Acad Sci U S A. 2018 Nov 21. pii: 1807954115. doi:, 10.1073/pnas.1807954115. PMID:30463959<ref>PMID:30463959</ref>

-	~~Description: Corynebacterium glutamicum OxyR C206 mutant~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: Messens, J.M]]	+	<div class="pdbe-citations 6g1d" style="background-color:#fffaf0;"></div>
-	[[Category: Pedre, B.P]]	+	== References ==
-	[[Category: Young, D.R]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Messens, J M]]
		+	[[Category: Pedre, B P]]
		+	[[Category: Young, D R]]
		+	[[Category: Hydrogen peroxide]]
		+	[[Category: Lysr]]
		+	[[Category: Redox]]
		+	[[Category: Transcription]]
		+	[[Category: Transcription factor]]

OCA: Protected "6g1d" [edit=sysop:move=sysop]

OCA — Wed, 28 Mar 2018 05:29:36 GMT

Protected "6g1d" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:29, 28 March 2018

OCA: New page: '''Unreleased structure''' The entry 6g1d is ON HOLD Authors: Young, D.R., Pedre, B.P., Messens, J.M. Description: Corynebacterium glutamicum OxyR C206 mutant [[Category: Unreleased St...

OCA — Wed, 28 Mar 2018 05:29:35 GMT

New page: '''Unreleased structure''' The entry 6g1d is ON HOLD Authors: Young, D.R., Pedre, B.P., Messens, J.M. Description: Corynebacterium glutamicum OxyR C206 mutant [[Category: Unreleased St...

New page

'''Unreleased structure'''

The entry 6g1d is ON HOLD

Authors: Young, D.R., Pedre, B.P., Messens, J.M.

Description: Corynebacterium glutamicum OxyR C206 mutant
[[Category: Unreleased Structures]]
[[Category: Messens, J.M]]
[[Category: Pedre, B.P]]
[[Category: Young, D.R]]