6q5v - Revision history

OCA at 11:53, 24 January 2024

OCA — Wed, 24 Jan 2024 11:53:32 GMT

←Older revision		Revision as of 11:53, 24 January 2024
Line 3:		Line 3:
	<StructureSection load='6q5v' size='340' side='right'caption='[[6q5v]], [[Resolution\|resolution]] 2.75Å' scene=''>		<StructureSection load='6q5v' size='340' side='right'caption='[[6q5v]], [[Resolution\|resolution]] 2.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6q5v]] is a 10 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Sulir Sulir~~]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=6gww 6gww] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=6feu 6feu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6Q5V OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6Q5V FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6q5v]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Sulfolobus_islandicus_REY15A Sulfolobus islandicus REY15A]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=6gww 6gww] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=6feu 6feu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6Q5V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6Q5V FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>SiRe_0346 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id~~=930945 SULIR])</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]] 2.747Å</td></tr>
-	~~<tr id='activity'><td class~~="~~sblockLbl~~">~~<b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>~~[~~http://en.wikipedia.org/wiki/Peroxiredoxin Peroxiredoxin~~]~~, with EC number [http://www~~.~~brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.15 1.11.1.15] </span>~~</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=6q5v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6q5v OCA], [https://pdbe.org/6q5v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6q5v RCSB], [https://www.ebi.ac.uk/pdbsum/6q5v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6q5v 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=6q5v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6q5v OCA], [~~http~~://pdbe.org/6q5v PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6q5v RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6q5v PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6q5v ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/F0NEA3_SULIR F0NEA3_SULIR]] Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively. Plays a role in cell protection against oxidative stress by detoxifying peroxides.[HAMAP-Rule:MF_00401]	+	[https://www.uniprot.org/uniprot/F0NEA3_SULIR F0NEA3_SULIR] Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively. Plays a role in cell protection against oxidative stress by detoxifying peroxides.[HAMAP-Rule:MF_00401]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 20:

	==See Also==		==See Also==
-	*[[Peroxiredoxin\|Peroxiredoxin]]	+	*[[Peroxiredoxin 3D structures\|Peroxiredoxin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 27:		Line 26:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Peroxiredoxin]]~~	+	[[Category: Sulfolobus islandicus REY15A]]
-	~~[[Category: Sulir~~]]	+	[[Category: Maes D]]
-	[[Category: Maes, D]]	+	[[Category: Peeters E]]
-	~~[[Category: Molle, I van~~]]	+	[[Category: Stroobants S]]
-	[[Category: Peeters, E]]	+	[[Category: Van Molle I]]
-	[[Category: Stroobants, S]]	+
-	[[Category: ~~Archaea]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Sulfolobus islandicus~~]]	+

OCA at 07:40, 26 June 2019

OCA — Wed, 26 Jun 2019 07:40:30 GMT

←Older revision		Revision as of 07:40, 26 June 2019
Line 3:		Line 3:
	<StructureSection load='6q5v' size='340' side='right'caption='[[6q5v]], [[Resolution\|resolution]] 2.75Å' scene=''>		<StructureSection load='6q5v' size='340' side='right'caption='[[6q5v]], [[Resolution\|resolution]] 2.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6q5v]] is a 10 chain structure. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=6gww 6gww] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=6feu 6feu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6Q5V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6Q5V FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6q5v]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Sulir Sulir]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=6gww 6gww] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=6feu 6feu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6Q5V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6Q5V FirstGlance]. <br>
-	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peroxiredoxin Peroxiredoxin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.15 1.11.1.15] </span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SiRe_0346 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=930945 SULIR])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peroxiredoxin Peroxiredoxin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.15 1.11.1.15] </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=6q5v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6q5v OCA], [http://pdbe.org/6q5v PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6q5v RCSB], [http://www.ebi.ac.uk/pdbsum/6q5v PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6q5v 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=6q5v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6q5v OCA], [http://pdbe.org/6q5v PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6q5v RCSB], [http://www.ebi.ac.uk/pdbsum/6q5v PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6q5v ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/F0NEA3_SULIR F0NEA3_SULIR]] Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively. Plays a role in cell protection against oxidative stress by detoxifying peroxides.[HAMAP-Rule:MF_00401]		[[http://www.uniprot.org/uniprot/F0NEA3_SULIR F0NEA3_SULIR]] Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively. Plays a role in cell protection against oxidative stress by detoxifying peroxides.[HAMAP-Rule:MF_00401]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Aerobic thermoacidophilic archaea belonging to the genus Sulfolobus harbor peroxiredoxins, thiol-dependent peroxidases that assist in protecting the cells from oxidative damage. Here, the crystal structure of the 1-Cys peroxiredoxin from Sulfolobus islandicus, named 1-Cys SiPrx, is presented. A 2.75 A resolution data set was collected from a crystal belonging to space group P212121, with unit-cell parameters a = 86.8, b = 159.1, c = 189.3 A, alpha = beta = gamma = 90 degrees . The structure was solved by molecular replacement using the homologous Aeropyrum pernix peroxiredoxin (ApPrx) structure as a search model. In the crystal structure, 1-Cys SiPrx assembles into a ring-shaped decamer composed of five homodimers. This quaternary structure corresponds to the oligomeric state of the protein in solution, as observed by size-exclusion chromatography. 1-Cys SiPrx harbors only a single cysteine, which is the peroxidatic cysteine, and lacks both of the cysteines that are highly conserved in the C-terminal arm domain in other archaeal Prx6-subfamily proteins such as ApPrx and that are involved in the association of dimers into higher-molecular-weight decamers and dodecamers. It is thus concluded that the Sulfolobus Prx6-subfamily protein undergoes decamerization independently of arm-domain cysteines.
		+
		+	Structure of the Prx6-subfamily 1-Cys peroxiredoxin from Sulfolobus islandicus.,Stroobants S, Van Molle I, Saidi Q, Jonckheere K, Maes D, Peeters E Acta Crystallogr F Struct Biol Commun. 2019 Jun 1;75(Pt 6):428-434. doi:, 10.1107/S2053230X19006472. Epub 2019 May 13. PMID:31204689<ref>PMID:31204689</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6q5v" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Peroxiredoxin\|Peroxiredoxin]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Peroxiredoxin]]		[[Category: Peroxiredoxin]]
		+	[[Category: Sulir]]
	[[Category: Maes, D]]		[[Category: Maes, D]]
	[[Category: Molle, I van]]		[[Category: Molle, I van]]

OCA at 05:58, 29 May 2019

OCA — Wed, 29 May 2019 05:58:43 GMT

←Older revision		Revision as of 05:58, 29 May 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6q5v is ~~ON HOLD~~	+	==1-Cys SiPrx, a Prx6-family 1-Cys peroxiredoxin of the thermoacidophilic archaeon Sulfolobus islandicus==
-		+	<StructureSection load='6q5v' size='340' side='right'caption='[[6q5v]], [[Resolution\|resolution]] 2.75Å' scene=''>
-	~~Authors~~: ~~Stroobants~~, S., ~~Maes~~, D., ~~Peeters, E~~., ~~van Molle, I~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6q5v]] is a 10 chain structure. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=6gww 6gww] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=6feu 6feu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6Q5V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6Q5V FirstGlance]. <br>
-	~~Description~~: 1-~~Cys SiPrx~~, a ~~Prx6~~-~~family 1-Cys peroxiredoxin of the thermoacidophilic archaeon Sulfolobus islandicus~~	+	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peroxiredoxin Peroxiredoxin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.15 1.11.1.15] </span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<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=6q5v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6q5v OCA], [http://pdbe.org/6q5v PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6q5v RCSB], [http://www.ebi.ac.uk/pdbsum/6q5v PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6q5v ProSAT]</span></td></tr>
-	[[Category: ~~Van Molle, I~~]]	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/F0NEA3_SULIR F0NEA3_SULIR]] Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively. Plays a role in cell protection against oxidative stress by detoxifying peroxides.[HAMAP-Rule:MF_00401]
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Peroxiredoxin]]
	[[Category: Maes, D]]		[[Category: Maes, D]]
		+	[[Category: Molle, I van]]
		+	[[Category: Peeters, E]]
	[[Category: Stroobants, S]]		[[Category: Stroobants, S]]
-	[[Category: ~~Peeters, E~~]]	+	[[Category: Archaea]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Sulfolobus islandicus]]

OCA at 07:19, 1 May 2019

OCA — Wed, 01 May 2019 07:19:57 GMT

←Older revision		Revision as of 07:19, 1 May 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6q5v is ON HOLD ~~until Paper Publication~~	+	The entry 6q5v is ON HOLD

	Authors: Stroobants, S., Maes, D., Peeters, E., van Molle, I.		Authors: Stroobants, S., Maes, D., Peeters, E., van Molle, I.

OCA: Protected "6q5v" [edit=sysop:move=sysop]

OCA — Wed, 19 Dec 2018 06:44:34 GMT

Protected "6q5v" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:44, 19 December 2018

OCA: New page: '''Unreleased structure''' The entry 6q5v is ON HOLD until Paper Publication Authors: Stroobants, S., Maes, D., Peeters, E., van Molle, I. Description: 1-Cys SiPrx, a Prx6-family 1-Cys...

OCA — Wed, 19 Dec 2018 06:44:32 GMT

New page: '''Unreleased structure''' The entry 6q5v is ON HOLD until Paper Publication Authors: Stroobants, S., Maes, D., Peeters, E., van Molle, I. Description: 1-Cys SiPrx, a Prx6-family 1-Cys...

New page

'''Unreleased structure'''

The entry 6q5v is ON HOLD until Paper Publication

Authors: Stroobants, S., Maes, D., Peeters, E., van Molle, I.

Description: 1-Cys SiPrx, a Prx6-family 1-Cys peroxiredoxin of the thermoacidophilic archaeon Sulfolobus islandicus
[[Category: Unreleased Structures]]
[[Category: Van Molle, I]]
[[Category: Maes, D]]
[[Category: Stroobants, S]]
[[Category: Peeters, E]]