5iiz - Revision history

OCA at 13:55, 30 August 2023

OCA — Wed, 30 Aug 2023 13:55:21 GMT

←Older revision		Revision as of 13:55, 30 August 2023
Line 3:		Line 3:
	<StructureSection load='5iiz' size='340' side='right'caption='[[5iiz]], [[Resolution\|resolution]] 1.05Å' scene=''>		<StructureSection load='5iiz' size='340' side='right'caption='[[5iiz]], [[Resolution\|resolution]] 1.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5iiz]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Xanthomonas_campestris_pv.~~_armoraciae_756c~~ Xanthomonas campestris pv. ~~armoraciae 756c~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IIZ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5IIZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5iiz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Xanthomonas_campestris_pv._raphani_756C Xanthomonas campestris pv. raphani 756C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IIZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5IIZ FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=NA:SODIUM+ION'>NA</scene~~></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]] 1.05Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b></td><td class="sblockDat">[[5im9\|5im9]], [[5ima\|5ima]], [[5imc\|5imc]], [[5imd\|5imd]], [[5imf\|5imf]], [[5imv\|5imv]], [[5imz\|5imz]], [[3gkm\|3gkm]], [[3gkn\|3gkn]], [[3gkk\|3gkk]]</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=5iiz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5iiz OCA], [https://pdbe.org/5iiz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5iiz RCSB], [https://www.ebi.ac.uk/pdbsum/5iiz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5iiz ProSAT]</span></td></tr>
-	~~<tr id='gene~~'>~~<td class="sblockLbl"><b>[[Gene\|Gene:]]~~</b>~~</td><td class="sblockDat">bcp, XCR_1978 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=990315 Xanthomonas campestris pv. armoraciae 756C])~~</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=5iiz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5iiz OCA], [~~http~~://pdbe.org/5iiz PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5iiz RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5iiz PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5iiz ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/G0CBC0_XANCA G0CBC0_XANCA]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 19:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 5iiz" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5iiz" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Bacterioferritin comigratory protein\|Bacterioferritin comigratory protein]]
	== References ==		== References ==
	<references/>		<references/>
Line 24:		Line 27:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Xanthomonas campestris pv. ~~armoraciae 756c~~]]	+	[[Category: Xanthomonas campestris pv. raphani 756C]]
-	[[Category: Karplus, A]]	+	[[Category: Karplus A]]
-	[[Category: Nelson~~, K J~~]]	+	[[Category: Nelson KJ]]
-	[[Category: Parsonage, D]]	+	[[Category: Parsonage D]]
-	[[Category: Perkins, A]]	+	[[Category: Perkins A]]
-	[[Category: Poole~~, L B]]~~	+	[[Category: Poole LB]]
-	~~[[Category: Bcp]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Peroxidase]]~~	+
-	~~[[Category: Prxq]]~~	+
-	~~[[Category: Redox~~]]	+

OCA at 11:49, 25 December 2019

OCA — Wed, 25 Dec 2019 11:49:02 GMT

←Older revision		Revision as of 11:49, 25 December 2019
Line 1:		Line 1:

	==Xanthomonas campestris Peroxiredoxin Q - Structure F0==		==Xanthomonas campestris Peroxiredoxin Q - Structure F0==
-	<StructureSection load='5iiz' size='340' side='right' caption='[[5iiz]], [[Resolution\|resolution]] 1.05Å' scene=''>	+	<StructureSection load='5iiz' size='340' side='right'caption='[[5iiz]], [[Resolution\|resolution]] 1.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5iiz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Xanthomonas_campestris_pv._armoraciae_756c Xanthomonas campestris pv. armoraciae 756c]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IIZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5IIZ FirstGlance]. <br>		<table><tr><td colspan='2'>[[5iiz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Xanthomonas_campestris_pv._armoraciae_756c Xanthomonas campestris pv. armoraciae 756c]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IIZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5IIZ FirstGlance]. <br>
Line 23:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Xanthomonas campestris pv. armoraciae 756c]]		[[Category: Xanthomonas campestris pv. armoraciae 756c]]
	[[Category: Karplus, A]]		[[Category: Karplus, A]]

OCA at 12:51, 6 November 2017

OCA — Mon, 06 Nov 2017 12:51:15 GMT

←Older revision		Revision as of 12:51, 6 November 2017
Line 3:		Line 3:
	<StructureSection load='5iiz' size='340' side='right' caption='[[5iiz]], [[Resolution\|resolution]] 1.05Å' scene=''>		<StructureSection load='5iiz' size='340' side='right' caption='[[5iiz]], [[Resolution\|resolution]] 1.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5iiz]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IIZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5IIZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5iiz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Xanthomonas_campestris_pv._armoraciae_756c Xanthomonas campestris pv. armoraciae 756c]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IIZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5IIZ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5im9\|5im9]], [[5ima\|5ima]], [[5imc\|5imc]], [[5imd\|5imd]], [[5imf\|5imf]], [[5imv\|5imv]], [[5imz\|5imz]], [[3gkm\|3gkm]], [[3gkn\|3gkn]], [[3gkk\|3gkk]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5im9\|5im9]], [[5ima\|5ima]], [[5imc\|5imc]], [[5imd\|5imd]], [[5imf\|5imf]], [[5imv\|5imv]], [[5imz\|5imz]], [[3gkm\|3gkm]], [[3gkn\|3gkn]], [[3gkk\|3gkk]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">bcp, XCR_1978 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=990315 Xanthomonas campestris pv. armoraciae 756C])</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=5iiz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5iiz OCA], [http://pdbe.org/5iiz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5iiz RCSB], [http://www.ebi.ac.uk/pdbsum/5iiz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5iiz 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=5iiz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5iiz OCA], [http://pdbe.org/5iiz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5iiz RCSB], [http://www.ebi.ac.uk/pdbsum/5iiz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5iiz ProSAT]</span></td></tr>
	</table>		</table>
Line 22:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Xanthomonas campestris pv. armoraciae 756c]]
	[[Category: Karplus, A]]		[[Category: Karplus, A]]
	[[Category: Nelson, K J]]		[[Category: Nelson, K J]]

OCA at 13:51, 21 September 2016

OCA — Wed, 21 Sep 2016 13:51:31 GMT

←Older revision		Revision as of 13:51, 21 September 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5iiz is ~~ON HOLD until Paper~~ Publication	+	==Xanthomonas campestris Peroxiredoxin Q - Structure F0==
		+	<StructureSection load='5iiz' size='340' side='right' caption='[[5iiz]], [[Resolution\|resolution]] 1.05Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5iiz]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IIZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5IIZ FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5im9\|5im9]], [[5ima\|5ima]], [[5imc\|5imc]], [[5imd\|5imd]], [[5imf\|5imf]], [[5imv\|5imv]], [[5imz\|5imz]], [[3gkm\|3gkm]], [[3gkn\|3gkn]], [[3gkk\|3gkk]]</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=5iiz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5iiz OCA], [http://pdbe.org/5iiz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5iiz RCSB], [http://www.ebi.ac.uk/pdbsum/5iiz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5iiz ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Peroxiredoxins (Prxs) are ubiquitous cysteine-based peroxidases that guard cells against oxidative damage, are virulence factors for pathogens, and are involved in eukaryotic redox regulatory pathways. We have analyzed catalytically active crystals to capture atomic resolution snapshots of a PrxQ subfamily enzyme (from Xanthomonas campestris) proceeding through thiolate, sulfenate, and sulfinate species. These analyses provide structures of unprecedented accuracy for seeding theoretical studies, and reveal conformational intermediates giving insight into the reaction pathway. Based on a highly non-standard geometry seen for the sulfenate intermediate, we infer that the sulfenate formation itself can strongly promote local unfolding of the active site to enhance productive catalysis. Further, these structures reveal that preventing local unfolding, in this case via crystal contacts, results in facile hyperoxidative inactivation even for Prxs normally resistant to such inactivation. This supports previous proposals that conformation-specific inhibitors may be useful for achieving selective inhibition of Prxs that are drug targets.

-	~~Authors: Perkins~~, A., Parsonage, D., Nelson, ~~K.J.~~, Poole, L.B., ~~Karplus, A~~.	+	Peroxiredoxin Catalysis at Atomic Resolution.,Perkins A, Parsonage D, Nelson KJ, Ogba OM, Cheong PH, Poole LB, Karplus PA Structure. 2016 Sep 1. pii: S0969-2126(16)30223-4. doi:, 10.1016/j.str.2016.07.012. PMID:27594682<ref>PMID:27594682</ref>

-	~~Description: Xanthomonas campestris Peroxiredoxin Q -Structure F0~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Perkins, A]]~~	+	<div class="pdbe-citations 5iiz" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Karplus, A]]		[[Category: Karplus, A]]
-	[[Category: Nelson, K.J]]	+	[[Category: Nelson, K J]]
	[[Category: Parsonage, D]]		[[Category: Parsonage, D]]
-	[[Category: Poole, L.B]]	+	[[Category: Perkins, A]]
		+	[[Category: Poole, L B]]
		+	[[Category: Bcp]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Peroxidase]]
		+	[[Category: Prxq]]
		+	[[Category: Redox]]

OCA at 00:32, 11 May 2016

OCA — Wed, 11 May 2016 00:32:22 GMT

←Older revision		Revision as of 00:32, 11 May 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5iiz is ON HOLD	+	The entry 5iiz is ON HOLD until Paper Publication

-	Authors: ~~Arden~~ Perkins, ~~Derek~~ Parsonage, ~~Kimberly~~ Nelson, ~~Leslie~~ Poole, ~~Andy~~ Karplus	+	Authors: Perkins, A., Parsonage, D., Nelson, K.J., Poole, L.B., Karplus, A.

	Description: Xanthomonas campestris Peroxiredoxin Q -Structure F0		Description: Xanthomonas campestris Peroxiredoxin Q -Structure F0
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: ~~Arden~~ Perkins, ~~Derek Parsonage~~, ~~Kimberly~~ Nelson, ~~Leslie~~ Poole, ~~Andy Karplus~~]]	+	[[Category: Perkins, A]]
		+	[[Category: Karplus, A]]
		+	[[Category: Nelson, K.J]]
		+	[[Category: Parsonage, D]]
		+	[[Category: Poole, L.B]]

OCA: Protected "5iiz" [edit=sysop:move=sysop]

OCA — Thu, 10 Mar 2016 02:24:03 GMT

Protected "5iiz" [edit=sysop:move=sysop]

←Older revision

Revision as of 02:24, 10 March 2016

OCA: New page: '''Unreleased structure''' The entry 5iiz is ON HOLD Authors: Arden Perkins, Derek Parsonage, Kimberly Nelson, Leslie Poole, Andy Karplus Description: Xanthomonas campestris Peroxiredo...

OCA — Thu, 10 Mar 2016 02:24:01 GMT

New page: '''Unreleased structure''' The entry 5iiz is ON HOLD Authors: Arden Perkins, Derek Parsonage, Kimberly Nelson, Leslie Poole, Andy Karplus Description: Xanthomonas campestris Peroxiredo...

New page

'''Unreleased structure'''

The entry 5iiz is ON HOLD

Authors: Arden Perkins, Derek Parsonage, Kimberly Nelson, Leslie Poole, Andy Karplus

Description: Xanthomonas campestris Peroxiredoxin Q -Structure F0
[[Category: Unreleased Structures]]
[[Category: Arden Perkins, Derek Parsonage, Kimberly Nelson, Leslie Poole, Andy Karplus]]