6itz - Revision history

OCA at 12:34, 17 July 2019

OCA — Wed, 17 Jul 2019 12:34:24 GMT

←Older revision		Revision as of 12:34, 17 July 2019
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	==Peroxiredoxin from Thermococcus kodakaraensis==		==Peroxiredoxin from Thermococcus kodakaraensis==
-	<StructureSection load='6itz' size='340' side='right' caption='[[6itz]], [[Resolution\|resolution]] 2.96Å' scene=''>	+	<StructureSection load='6itz' size='340' side='right'caption='[[6itz]], [[Resolution\|resolution]] 2.96Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6itz]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ITZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6ITZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6itz]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_kodakaraensis_(strain_kod1) Pyrococcus kodakaraensis (strain kod1)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ITZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6ITZ 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">TK0537 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=69014 Pyrococcus kodakaraensis (strain KOD1)])</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=6itz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6itz OCA], [http://pdbe.org/6itz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6itz RCSB], [http://www.ebi.ac.uk/pdbsum/6itz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6itz 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=6itz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6itz OCA], [http://pdbe.org/6itz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6itz RCSB], [http://www.ebi.ac.uk/pdbsum/6itz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6itz ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Peroxiredoxin]]		[[Category: Peroxiredoxin]]
	[[Category: Himiyama, T]]		[[Category: Himiyama, T]]

OCA at 07:30, 6 March 2019

OCA — Wed, 06 Mar 2019 07:30:59 GMT

←Older revision		Revision as of 07:30, 6 March 2019
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-	'''Unreleased structure'''

-	~~The entry~~ 6itz ~~is ON HOLD~~ ~~until Paper~~ Publication	+	==Peroxiredoxin from Thermococcus kodakaraensis==
		+	<StructureSection load='6itz' size='340' side='right' caption='[[6itz]], [[Resolution\|resolution]] 2.96Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6itz]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ITZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6ITZ 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>
		+	<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=6itz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6itz OCA], [http://pdbe.org/6itz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6itz RCSB], [http://www.ebi.ac.uk/pdbsum/6itz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6itz ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/TDXH_THEKO TDXH_THEKO]] 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.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Peroxiredoxins from Pyrococcus horikoshii (PhPrx) and Thermococcus kodakaraensis (TkPrx) are highly homologous proteins sharing 196 of the 216 residues. We previously reported a pentagonal ring-type decameric structure of PhPrx. Here, we present the crystal structure of TkPrx. Despite their homology, unlike PhPrx, the quaternary structure of TkPrx was found to be a dodecamer comprised of six homodimers arranged in a hexagonal ring-type assembly. The possibility of the redox-dependent conversion of the molecular assembly, which had been observed in PhPrx, was excluded for TkPrx based on the crystal structure of a mutant in which all of the cysteine residues were substituted with serine. The monomer structures of the dodecameric TkPrx and decameric PhPrx coincided well, but there was a slight difference in the relative orientation of the two domains. Molecular assembly of PhPrx and TkPrx in solution evaluated by gel-filtration chromatography was consistent with the crystallographic results. For both PhPrx and TkPrx, the gel-filtration elution volume slightly increased with a decrease in the protein concentration, suggesting the existence of an equilibrium state between the decameric/dodecameric ring and lower-order assembly. This structural assembly difference between highly homologous Prxs suggests a significant influence of quaternary structure on function, worthy of further exploration.

-	~~Authors: Nakamura, T~~., Himiyama, T.	+	Distinct molecular assembly of homologous peroxiredoxins from Pyrococcus horikoshii and Thermococcus kodakaraensis.,Himiyama T, Oshima M, Uegaki K, Nakamura T J Biochem. 2019 Feb 22. pii: 5362029. doi: 10.1093/jb/mvz013. PMID:30796432<ref>PMID:30796432</ref>

-	~~Description~~: ~~Peroxiredoxin from Thermococcus kodakaraensis~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 6itz" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Peroxiredoxin]]
	[[Category: Himiyama, T]]		[[Category: Himiyama, T]]
	[[Category: Nakamura, T]]		[[Category: Nakamura, T]]
		+	[[Category: Dodecamer]]
		+	[[Category: Hydrogen peroxide]]
		+	[[Category: Oxidoreductase]]

OCA at 06:01, 30 January 2019

OCA — Wed, 30 Jan 2019 06:01:42 GMT

←Older revision		Revision as of 06:01, 30 January 2019
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6itz is ON HOLD	+	The entry 6itz is ON HOLD until Paper Publication

	Authors: Nakamura, T., Himiyama, T.		Authors: Nakamura, T., Himiyama, T.

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

OCA — Wed, 05 Dec 2018 05:10:47 GMT

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

←Older revision

Revision as of 05:10, 5 December 2018

OCA: New page: '''Unreleased structure''' The entry 6itz is ON HOLD Authors: Nakamura, T., Himiyama, T. Description: Peroxiredoxin from Thermococcus kodakaraensis Category: Unreleased Structures ...

OCA — Wed, 05 Dec 2018 05:10:46 GMT

New page: '''Unreleased structure''' The entry 6itz is ON HOLD Authors: Nakamura, T., Himiyama, T. Description: Peroxiredoxin from Thermococcus kodakaraensis Category: Unreleased Structures ...

New page

'''Unreleased structure'''

The entry 6itz is ON HOLD

Authors: Nakamura, T., Himiyama, T.

Description: Peroxiredoxin from Thermococcus kodakaraensis
[[Category: Unreleased Structures]]
[[Category: Himiyama, T]]
[[Category: Nakamura, T]]