5yww - Revision history

OCA at 08:39, 22 November 2023

OCA — Wed, 22 Nov 2023 08:39:35 GMT

←Older revision		Revision as of 08:39, 22 November 2023
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	==Archael RuvB-like Holiday junction helicase==		==Archael RuvB-like Holiday junction helicase==
-	<StructureSection load='5yww' size='340' side='right' caption='[[5yww]], [[Resolution\|resolution]] 2.33Å' scene=''>	+	<StructureSection load='5yww' size='340' side='right'caption='[[5yww]], [[Resolution\|resolution]] 2.33Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5yww]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Sulir Sulir~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YWW OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5YWW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5yww]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Sulfolobus_islandicus_REY15A Sulfolobus islandicus REY15A]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YWW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5YWW FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=GOL:GLYCEROL'>GOL</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]] 2.33Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5f4h\|5f4h]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~"><~~b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">SiRe_1432 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=930945 SULIR])~~</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=5yww FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yww OCA], [https://pdbe.org/5yww PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5yww RCSB], [https://www.ebi.ac.uk/pdbsum/5yww PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5yww 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=5yww FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yww OCA], [~~http~~://pdbe.org/5yww PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5yww RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5yww PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5yww ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/F0NID4_SULIR F0NID4_SULIR]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 18:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 5yww" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5yww" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Helicase 3D structures\|Helicase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Sulir~~]]	+	[[Category: Large Structures]]
-	[[Category: DuPrez, K]]	+	[[Category: Sulfolobus islandicus REY15A]]
-	[[Category: Fan, L]]	+	[[Category: DuPrez K]]
-	[[Category: Han, X]]	+	[[Category: Fan L]]
-	[[Category: Shen, Y]]	+	[[Category: Han X]]
-	[[Category: Yuan, Z]]	+	[[Category: Shen Y]]
-	[[Category: Zhai, B]]	+	[[Category: Yuan Z]]
-	~~[[Category: Atpase]]~~	+	[[Category: Zhai B]]
-	~~[[Category: Helicase]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 22:04, 9 August 2018

OCA — Thu, 09 Aug 2018 22:04:48 GMT

←Older revision		Revision as of 22:04, 9 August 2018
Line 3:		Line 3:
	<StructureSection load='5yww' size='340' side='right' caption='[[5yww]], [[Resolution\|resolution]] 2.33Å' scene=''>		<StructureSection load='5yww' size='340' side='right' caption='[[5yww]], [[Resolution\|resolution]] 2.33Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5yww]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YWW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YWW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5yww]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Sulir Sulir]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YWW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YWW FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5f4h\|5f4h]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5f4h\|5f4h]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SiRe_1432 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=930945 SULIR])</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=5yww FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yww OCA], [http://pdbe.org/5yww PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yww RCSB], [http://www.ebi.ac.uk/pdbsum/5yww PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yww 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=5yww FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yww OCA], [http://pdbe.org/5yww PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yww RCSB], [http://www.ebi.ac.uk/pdbsum/5yww PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yww ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Sulir]]
	[[Category: DuPrez, K]]		[[Category: DuPrez, K]]
	[[Category: Fan, L]]		[[Category: Fan, L]]

OCA at 07:36, 14 June 2018

OCA — Thu, 14 Jun 2018 07:36:12 GMT

←Older revision		Revision as of 07:36, 14 June 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5yww is ~~ON HOLD until Paper~~ Publication	+	==Archael RuvB-like Holiday junction helicase==
		+	<StructureSection load='5yww' size='340' side='right' caption='[[5yww]], [[Resolution\|resolution]] 2.33Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5yww]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YWW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YWW FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5f4h\|5f4h]]</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=5yww FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yww OCA], [http://pdbe.org/5yww PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yww RCSB], [http://www.ebi.ac.uk/pdbsum/5yww PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yww ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	PINA is a novel ATPase and DNA helicase highly conserved in Archaea, the third domain of life. The PINA from Sulfolobus islandicus (SisPINA) forms a hexameric ring in crystal and solution. The protein is able to promote Holliday junction (HJ) migration and physically and functionally interacts with Hjc, the HJ specific endonuclease. Here, we show that SisPINA has direct physical interaction with Hjm (Hel308a), a helicase presumably targeting replication forks. In vitro biochemical analysis revealed that Hjm, Hjc, and SisPINA are able to coordinate HJ migration and cleavage in a concerted way. Deletion of the carboxyl 13 amino acid residues impaired the interaction between SisPINA and Hjm. Crystal structure analysis showed that the carboxyl 70 amino acid residues fold into a type II KH domain which, in other proteins, functions in binding RNA or ssDNA. The KH domain not only mediates the interactions of PINA with Hjm and Hjc but also regulates the hexameric assembly of PINA. Our results collectively suggest that SisPINA, Hjm and Hjc work together to function in replication fork regression, HJ formation and HJ cleavage.

-	~~Authors: Zhai~~, B., ~~Yuan, Z.~~, Han, X., ~~DuPrez~~, K., ~~Shen~~, Y., ~~Fan~~, L.	+	The archaeal ATPase PINA interacts with the helicase Hjm via its carboxyl terminal KH domain remodeling and processing replication fork and Holliday junction.,Zhai B, DuPrez K, Han X, Yuan Z, Ahmad S, Xu C, Gu L, Ni J, Fan L, Shen Y Nucleic Acids Res. 2018 May 29. pii: 5017765. doi: 10.1093/nar/gky451. PMID:29846688<ref>PMID:29846688</ref>

-	~~Description: Archael RuvB-like Holiday junction helicase~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: ~~Duprez~~, K]]	+	<div class="pdbe-citations 5yww" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: DuPrez, K]]
	[[Category: Fan, L]]		[[Category: Fan, L]]
		+	[[Category: Han, X]]
	[[Category: Shen, Y]]		[[Category: Shen, Y]]
-	[[Category: Zhai, B]]
	[[Category: Yuan, Z]]		[[Category: Yuan, Z]]
-	[[Category: ~~Han~~, X]]	+	[[Category: Zhai, B]]
		+	[[Category: Atpase]]
		+	[[Category: Helicase]]
		+	[[Category: Hydrolase]]

OCA at 04:49, 20 December 2017

OCA — Wed, 20 Dec 2017 04:49:31 GMT

←Older revision		Revision as of 04:49, 20 December 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Zhai, B., Yuan, Z., Han, X., DuPrez, K., Shen, Y., Fan, L.		Authors: Zhai, B., Yuan, Z., Han, X., DuPrez, K., Shen, Y., Fan, L.
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	Description: Archael RuvB-like Holiday junction helicase		Description: Archael RuvB-like Holiday junction helicase
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
		+	[[Category: Duprez, K]]
		+	[[Category: Fan, L]]
	[[Category: Shen, Y]]		[[Category: Shen, Y]]
	[[Category: Zhai, B]]		[[Category: Zhai, B]]
-	[[Category: Duprez, K]]
	[[Category: Yuan, Z]]		[[Category: Yuan, Z]]
-	[[Category: Fan, L]]
	[[Category: Han, X]]		[[Category: Han, X]]

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

OCA — Wed, 06 Dec 2017 06:01:29 GMT

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

←Older revision

Revision as of 06:01, 6 December 2017

OCA: New page: '''Unreleased structure''' The entry 5yww is ON HOLD Authors: Zhai, B., Yuan, Z., Han, X., DuPrez, K., Shen, Y., Fan, L. Description: Archael RuvB-like Holiday junction helicase [[Cate...

OCA — Wed, 06 Dec 2017 06:01:28 GMT

New page: '''Unreleased structure''' The entry 5yww is ON HOLD Authors: Zhai, B., Yuan, Z., Han, X., DuPrez, K., Shen, Y., Fan, L. Description: Archael RuvB-like Holiday junction helicase [[Cate...

New page

'''Unreleased structure'''

The entry 5yww is ON HOLD

Authors: Zhai, B., Yuan, Z., Han, X., DuPrez, K., Shen, Y., Fan, L.

Description: Archael RuvB-like Holiday junction helicase
[[Category: Unreleased Structures]]
[[Category: Shen, Y]]
[[Category: Zhai, B]]
[[Category: Duprez, K]]
[[Category: Yuan, Z]]
[[Category: Fan, L]]
[[Category: Han, X]]