3vwv - Revision history

OCA at 19:08, 27 July 2022

OCA — Wed, 27 Jul 2022 19:08:18 GMT

←Older revision		Revision as of 19:08, 27 July 2022
Line 1:		Line 1:

	==crystal structure of N-terminally truncated peroxiredoxin 4 from M. musculus==		==crystal structure of N-terminally truncated peroxiredoxin 4 from M. musculus==
-	<StructureSection load='3vwv' size='340' side='right' caption='[[3vwv]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='3vwv' size='340' side='right'caption='[[3vwv]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3vwv]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VWV OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3VWV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3vwv]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VWV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VWV FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2pn8\|2pn8]], [[3vwu\|3vwu]], [[3vww\|3vww]], [[3w8j\|3w8j]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2pn8\|2pn8]], [[3vwu\|3vwu]], [[3vww\|3vww]], [[3w8j\|3w8j]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Prdx4 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Prdx4 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</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='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Peroxiredoxin Peroxiredoxin], with EC number [https://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=3vwv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vwv OCA], [~~http~~://pdbe.org/3vwv PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3vwv RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3vwv PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3vwv ProSAT]</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=3vwv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vwv OCA], [https://pdbe.org/3vwv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vwv RCSB], [https://www.ebi.ac.uk/pdbsum/3vwv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vwv ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/PRDX4_MOUSE PRDX4_MOUSE]] Probably involved in redox regulation of the cell. Regulates the activation of NF-kappa-B in the cytosol by a modulation of I-kappa-B-alpha phosphorylation.	+	[[https://www.uniprot.org/uniprot/PRDX4_MOUSE PRDX4_MOUSE]] Probably involved in redox regulation of the cell. Regulates the activation of NF-kappa-B in the cytosol by a modulation of I-kappa-B-alpha phosphorylation.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 23:

	==See Also==		==See Also==
-	*[[Peroxiredoxin\|Peroxiredoxin]]	+	*[[Peroxiredoxin 3D structures\|Peroxiredoxin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Lk3 transgenic mice]]		[[Category: Lk3 transgenic mice]]
	[[Category: Peroxiredoxin]]		[[Category: Peroxiredoxin]]

OCA at 09:29, 4 August 2016

OCA — Thu, 04 Aug 2016 09:29:36 GMT

←Older revision		Revision as of 09:29, 4 August 2016
Line 1:		Line 1:
		+
	==crystal structure of N-terminally truncated peroxiredoxin 4 from M. musculus==		==crystal structure of N-terminally truncated peroxiredoxin 4 from M. musculus==
	<StructureSection load='3vwv' size='340' side='right' caption='[[3vwv]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='3vwv' size='340' side='right' caption='[[3vwv]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3vwv]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Mus_musculus Mus musculus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VWV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VWV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3vwv]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VWV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VWV FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2pn8\|2pn8]], [[3vwu\|3vwu]], [[3vww\|3vww]], [[3w8j\|3w8j]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2pn8\|2pn8]], [[3vwu\|3vwu]], [[3vww\|3vww]], [[3w8j\|3w8j]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Prdx4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 ~~Mus musculus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Prdx4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</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='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=3vwv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vwv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vwv RCSB], [http://www.ebi.ac.uk/pdbsum/3vwv PDBsum]</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=3vwv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vwv OCA], [http://pdbe.org/3vwv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3vwv RCSB], [http://www.ebi.ac.uk/pdbsum/3vwv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3vwv ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 3vwv" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 26:		Line 28:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Mus musculus~~]]	+	[[Category: Lk3 transgenic mice]]
	[[Category: Peroxiredoxin]]		[[Category: Peroxiredoxin]]
	[[Category: Inaba, K]]		[[Category: Inaba, K]]

OCA at 08:16, 24 December 2014

OCA — Wed, 24 Dec 2014 08:16:20 GMT

←Older revision		Revision as of 08:16, 24 December 2014
Line 9:		Line 9:
	<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=3vwv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vwv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vwv RCSB], [http://www.ebi.ac.uk/pdbsum/3vwv PDBsum]</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=3vwv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vwv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vwv RCSB], [http://www.ebi.ac.uk/pdbsum/3vwv PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PRDX4_MOUSE PRDX4_MOUSE]] Probably involved in redox regulation of the cell. Regulates the activation of NF-kappa-B in the cytosol by a modulation of I-kappa-B-alpha phosphorylation.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 07:28, 21 December 2014

OCA — Sun, 21 Dec 2014 07:28:09 GMT

←Older revision		Revision as of 07:28, 21 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3vwv\| PDB=3vwv \| SCENE= }}~~	+	==crystal structure of N-terminally truncated peroxiredoxin 4 from M. musculus==
-	===crystal structure of N-terminally truncated peroxiredoxin 4 from M. musculus===	+	<StructureSection load='3vwv' size='340' side='right' caption='[[3vwv]], [[Resolution\|resolution]] 1.80Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23949117}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3vwv]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VWV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VWV FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2pn8\|2pn8]], [[3vwu\|3vwu]], [[3vww\|3vww]], [[3w8j\|3w8j]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Prdx4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])</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=3vwv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vwv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vwv RCSB], [http://www.ebi.ac.uk/pdbsum/3vwv PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The mammalian endoplasmic reticulum (ER) harbors disulfide bond-generating enzymes, including Ero1alpha and peroxiredoxin 4 (Prx4), and nearly 20 members of the protein disulfide isomerase family (PDIs), which together constitute a suitable environment for oxidative protein folding. Here, we clarified the Prx4 preferential recognition of two PDI family proteins, P5 and ERp46, and the mode of interaction between Prx4 and P5 thioredoxin domain. Detailed analyses of oxidative folding catalyzed by the reconstituted Prx4-PDIs pathways demonstrated that, while P5 and ERp46 are dedicated to rapid, but promiscuous, disulfide introduction, PDI is an efficient proofreader of non-native disulfides. Remarkably, the Prx4-dependent formation of native disulfide bonds was accelerated when PDI was combined with ERp46 or P5, suggesting that PDIs work synergistically to increase the rate and fidelity of oxidative protein folding. Thus, the mammalian ER seems to contain highly systematized oxidative networks for the efficient production of large quantities of secretory proteins.

-	~~==Function==~~	+	Synergistic cooperation of PDI family members in peroxiredoxin 4-driven oxidative protein folding.,Sato Y, Kojima R, Okumura M, Hagiwara M, Masui S, Maegawa K, Saiki M, Horibe T, Suzuki M, Inaba K Sci Rep. 2013 Aug 16;3:2456. doi: 10.1038/srep02456. PMID:23949117<ref>PMID:23949117</ref>
-	~~[[http~~:~~//www~~.~~uniprot~~.~~org~~/~~uniprot~~/~~PRDX4_MOUSE PRDX4_MOUSE]] Probably involved in redox regulation of the cell. Regulates the activation of NF-kappa-B in the cytosol by a modulation of I-kappa-B-alpha phosphorylation.~~	+

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[3vwv]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Mus_musculus Mus musculus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3VWV OCA].~~	+	</div>

-	==~~Reference~~==	+	==See Also==
-	~~<ref group~~=~~"xtra">PMID:023949117</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	*[[Peroxiredoxin\|Peroxiredoxin]]
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	[[Category: Peroxiredoxin]]		[[Category: Peroxiredoxin]]
-	[[Category: Inaba, K.]]	+	[[Category: Inaba, K]]
-	[[Category: Suzuki, M.]]	+	[[Category: Suzuki, M]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
-	[[Category: Peroxiredoxin]]
	[[Category: Peroxiredoxin family]]		[[Category: Peroxiredoxin family]]
	[[Category: Thioredoxin fold]]		[[Category: Thioredoxin fold]]

OCA at 10:43, 4 September 2013

OCA — Wed, 04 Sep 2013 10:43:39 GMT

←Older revision		Revision as of 10:43, 4 September 2013
Line 1:		Line 1:
-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_3vwv\| PDB=3vwv \| SCENE= }}
		+	===crystal structure of N-terminally truncated peroxiredoxin 4 from M. musculus===
		+	{{ABSTRACT_PUBMED_23949117}}

-	~~The entry 3vwv is ON HOLD until Paper Publication~~	+	==Function==
		+	[[http://www.uniprot.org/uniprot/PRDX4_MOUSE PRDX4_MOUSE]] Probably involved in redox regulation of the cell. Regulates the activation of NF-kappa-B in the cytosol by a modulation of I-kappa-B-alpha phosphorylation.

-	~~Authors~~: ~~Inaba, K~~.~~, Suzuki, M~~.	+	==About this Structure==
		+	[[3vwv]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VWV OCA].

-	~~Description~~: ~~crystal structure of N-terminally truncated peroxiredoxin 4 from~~ M. ~~musculus~~	+	==Reference==
		+	<ref group="xtra">PMID:023949117</ref><references group="xtra"/><references/>
		+	[[Category: Mus musculus]]
		+	[[Category: Peroxiredoxin]]
		+	[[Category: Inaba, K.]]
		+	[[Category: Suzuki, M.]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Peroxiredoxin]]
		+	[[Category: Peroxiredoxin family]]
		+	[[Category: Thioredoxin fold]]

OCA at 08:35, 2 January 2013

OCA — Wed, 02 Jan 2013 08:35:27 GMT

←Older revision		Revision as of 08:35, 2 January 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3vwv is ON HOLD	+	The entry 3vwv is ON HOLD until Paper Publication

	Authors: Inaba, K., Suzuki, M.		Authors: Inaba, K., Suzuki, M.

	Description: crystal structure of N-terminally truncated peroxiredoxin 4 from M. musculus		Description: crystal structure of N-terminally truncated peroxiredoxin 4 from M. musculus

OCA: Protected "3vwv" [edit=sysop:move=sysop]

OCA — Wed, 12 Sep 2012 04:39:48 GMT

Protected "3vwv" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:39, 12 September 2012

OCA: New page: '''Unreleased structure''' The entry 3vwv is ON HOLD Authors: Inaba, K., Suzuki, M. Description: crystal structure of N-terminally truncated peroxiredoxin 4 from M. musculus

OCA — Wed, 12 Sep 2012 04:39:47 GMT

New page: '''Unreleased structure''' The entry 3vwv is ON HOLD Authors: Inaba, K., Suzuki, M. Description: crystal structure of N-terminally truncated peroxiredoxin 4 from M. musculus

New page

'''Unreleased structure'''

The entry 3vwv is ON HOLD

Authors: Inaba, K., Suzuki, M.

Description: crystal structure of N-terminally truncated peroxiredoxin 4 from M. musculus