7ada - Revision history

OCA at 12:07, 1 February 2024

OCA — Thu, 01 Feb 2024 12:07:31 GMT

←Older revision		Revision as of 12:07, 1 February 2024
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	<StructureSection load='7ada' size='340' side='right'caption='[[7ada]], [[Resolution\|resolution]] 3.34Å' scene=''>		<StructureSection load='7ada' size='340' side='right'caption='[[7ada]], [[Resolution\|resolution]] 3.34Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7ada]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Thermus_oshimai_jl~~-2 Thermus oshimai jl-2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7ADA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ADA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7ada]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_oshimai_JL-2 Thermus oshimai JL-2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7ADA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ADA FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~Theos_1468 (~~[~~https://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=751945 Thermus oshimai JL-2])~~</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]] 3.34Å</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=7ada FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ada OCA], [https://pdbe.org/7ada PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ada RCSB], [https://www.ebi.ac.uk/pdbsum/7ada PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ada 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=7ada FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ada OCA], [https://pdbe.org/7ada PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ada RCSB], [https://www.ebi.ac.uk/pdbsum/7ada PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ada ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/K7RJ88_THEOS K7RJ88_THEOS]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 7ada" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 7ada" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Helicase 3D structures\|Helicase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Thermus oshimai jl-2]]	+	[[Category: Thermus oshimai JL-2]]
-	[[Category: Chen~~, W F~~]]	+	[[Category: Chen WF]]
-	[[Category: Dai~~, Y X~~]]	+	[[Category: Dai YX]]
-	[[Category: Dou~~, S X~~]]	+	[[Category: Dou SX]]
-	[[Category: Hou~~, X M~~]]	+	[[Category: Hou XM]]
-	[[Category: Liu~~, N N~~]]	+	[[Category: Liu NN]]
-	[[Category: Rety, S]]	+	[[Category: Rety S]]
-	[[Category: Teng~~, F Y~~]]	+	[[Category: Teng FY]]
-	[[Category: Xi~~, X G]]~~	+	[[Category: Xi XG]]
-	~~[[Category: Dna helicase]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 05:30, 28 April 2021

OCA — Wed, 28 Apr 2021 05:30:43 GMT

←Older revision		Revision as of 05:30, 28 April 2021
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	==Crystal structure of helicase Pif1 from Thermus oshimai mutant Q164C-E409C==		==Crystal structure of helicase Pif1 from Thermus oshimai mutant Q164C-E409C==
-	<StructureSection load='7ada' size='340' side='right'caption='[[7ada]]' scene=''>	+	<StructureSection load='7ada' size='340' side='right'caption='[[7ada]], [[Resolution\|resolution]] 3.34Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7ADA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ADA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7ada]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_oshimai_jl-2 Thermus oshimai jl-2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7ADA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ADA FirstGlance]. <br>
-	</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=7ada FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ada OCA], [https://pdbe.org/7ada PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ada RCSB], [https://www.ebi.ac.uk/pdbsum/7ada PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ada ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Theos_1468 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=751945 Thermus oshimai JL-2])</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=7ada FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ada OCA], [https://pdbe.org/7ada PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ada RCSB], [https://www.ebi.ac.uk/pdbsum/7ada PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ada ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Pif1 is an SF1B helicase that is evolutionarily conserved from bacteria to humans and plays multiple roles in maintaining genome stability in both nucleus and mitochondria. Though highly conserved, Pif1 family harbors a large mechanistic diversity. Here, we report crystal structures of Thermus oshimai Pif1 (ToPif1) alone and complexed with partial duplex or single-stranded DNA. In the apo state and in complex with a partial duplex DNA, ToPif1 is monomeric with its domain 2B/loop3 adopting a closed and an open conformation, respectively. When complexed with a single-stranded DNA, ToPif1 forms a stable dimer with domain 2B/loop3 shifting to a more open conformation. Single-molecule and biochemical assays show that domain 2B/loop3 switches repetitively between the closed and open conformations when a ToPif1 monomer unwinds DNA and, in contrast with other typical dimeric SF1A helicases, dimerization has an inhibitory effect on its helicase activity. This mechanism is not general for all Pif1 helicases but illustrates the diversity of regulation mechanisms among different helicases. It also raises the possibility that although dimerization results in activation for SF1A helicases, it may lead to inhibition for some of the other uncharacterized SF1B helicases, an interesting subject warranting further studies.
		+
		+	Structural and functional studies of SF1B Pif1 from Thermus oshimai reveal dimerization-induced helicase inhibition.,Dai YX, Chen WF, Liu NN, Teng FY, Guo HL, Hou XM, Dou SX, Rety S, Xi XG Nucleic Acids Res. 2021 Mar 30. pii: 6204648. doi: 10.1093/nar/gkab188. PMID:33784404<ref>PMID:33784404</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7ada" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chen WF]]	+	[[Category: Thermus oshimai jl-2]]
-	[[Category: Dai YX]]	+	[[Category: Chen, W F]]
-	[[Category: Dou SX]]	+	[[Category: Dai, Y X]]
-	[[Category: Hou XM]]	+	[[Category: Dou, S X]]
-	[[Category: Liu NN]]	+	[[Category: Hou, X M]]
-	[[Category: Rety S]]	+	[[Category: Liu, N N]]
-	[[Category: Teng FY]]	+	[[Category: Rety, S]]
-	[[Category: Xi XG]]	+	[[Category: Teng, F Y]]
		+	[[Category: Xi, X G]]
		+	[[Category: Dna helicase]]
		+	[[Category: Hydrolase]]

OCA at 06:47, 7 April 2021

OCA — Wed, 07 Apr 2021 06:47:22 GMT

←Older revision		Revision as of 06:47, 7 April 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 7ada ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of helicase Pif1 from Thermus oshimai mutant Q164C-E409C==
-		+	<StructureSection load='7ada' size='340' side='right'caption='[[7ada]]' scene=''>
-	~~Authors~~: ~~Dai, Y~~.X.~~, Chen, W~~.F.~~, Teng, F~~.Y.~~, Liu, N~~.N., ~~Hou, X~~.M., ~~Dou~~, S.X., ~~Rety, S~~., ~~Xi, X~~.G.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7ADA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ADA FirstGlance]. <br>
-	~~Description: Crystal structure of helicase Pif1 from Thermus oshimai mutant Q164C-E409C~~	+	</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=7ada FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ada OCA], [https://pdbe.org/7ada PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ada RCSB], [https://www.ebi.ac.uk/pdbsum/7ada PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ada ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: ~~Rety, S~~]]	+	__TOC__
-	[[Category: ~~Teng, F.Y~~]]	+	</StructureSection>
-	[[Category: ~~Xi, X.G~~]]	+	[[Category: Large Structures]]
-	[[Category: Hou~~, X.M~~]]	+	[[Category: Chen WF]]
-	[[Category: ~~Dai, Y.X~~]]	+	[[Category: Dai YX]]
-	[[Category: ~~Dou,~~ S.X]]	+	[[Category: Dou SX]]
-	[[Category: ~~Chen, W.F~~]]	+	[[Category: Hou XM]]
-	[[Category: ~~Liu, N.N~~]]	+	[[Category: Liu NN]]
		+	[[Category: Rety S]]
		+	[[Category: Teng FY]]
		+	[[Category: Xi XG]]

OCA at 04:00, 14 October 2020

OCA — Wed, 14 Oct 2020 04:00:24 GMT

←Older revision		Revision as of 04:00, 14 October 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7ada is ON HOLD	+	The entry 7ada is ON HOLD until Paper Publication

	Authors: Dai, Y.X., Chen, W.F., Teng, F.Y., Liu, N.N., Hou, X.M., Dou, S.X., Rety, S., Xi, X.G.		Authors: Dai, Y.X., Chen, W.F., Teng, F.Y., Liu, N.N., Hou, X.M., Dou, S.X., Rety, S., Xi, X.G.
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	Description: Crystal structure of helicase Pif1 from Thermus oshimai mutant Q164C-E409C		Description: Crystal structure of helicase Pif1 from Thermus oshimai mutant Q164C-E409C
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
		+	[[Category: Rety, S]]
		+	[[Category: Teng, F.Y]]
	[[Category: Xi, X.G]]		[[Category: Xi, X.G]]
	[[Category: Hou, X.M]]		[[Category: Hou, X.M]]
-	[[Category: Chen, W.F]]
-	[[Category: Rety, S]]
	[[Category: Dai, Y.X]]		[[Category: Dai, Y.X]]
-	[[Category: Liu, N.N]]
	[[Category: Dou, S.X]]		[[Category: Dou, S.X]]
-	[[Category: ~~Teng~~, F.Y]]	+	[[Category: Chen, W.F]]
		+	[[Category: Liu, N.N]]

OCA: Protected "7ada" [edit=sysop:move=sysop]

OCA — Wed, 23 Sep 2020 08:43:19 GMT

Protected "7ada" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:43, 23 September 2020

OCA: New page: '''Unreleased structure''' The entry 7ada is ON HOLD Authors: Dai, Y.X., Chen, W.F., Teng, F.Y., Liu, N.N., Hou, X.M., Dou, S.X., Rety, S., Xi, X.G. Description: Crystal structure of h...

OCA — Wed, 23 Sep 2020 08:43:18 GMT

New page: '''Unreleased structure''' The entry 7ada is ON HOLD Authors: Dai, Y.X., Chen, W.F., Teng, F.Y., Liu, N.N., Hou, X.M., Dou, S.X., Rety, S., Xi, X.G. Description: Crystal structure of h...

New page

'''Unreleased structure'''

The entry 7ada is ON HOLD

Authors: Dai, Y.X., Chen, W.F., Teng, F.Y., Liu, N.N., Hou, X.M., Dou, S.X., Rety, S., Xi, X.G.

Description: Crystal structure of helicase Pif1 from Thermus oshimai mutant Q164C-E409C
[[Category: Unreleased Structures]]
[[Category: Xi, X.G]]
[[Category: Hou, X.M]]
[[Category: Chen, W.F]]
[[Category: Rety, S]]
[[Category: Dai, Y.X]]
[[Category: Liu, N.N]]
[[Category: Dou, S.X]]
[[Category: Teng, F.Y]]