3pev - Revision history

OCA at 07:34, 20 July 2022

OCA — Wed, 20 Jul 2022 07:34:28 GMT

OCA at 05:56, 14 October 2020

OCA — Wed, 14 Oct 2020 05:56:21 GMT

←Older revision		Revision as of 05:56, 14 October 2020
Line 1:		Line 1:

	==S. cerevisiae Dbp5 L327V C-terminal domain bound to Gle1 and IP6==		==S. cerevisiae Dbp5 L327V C-terminal domain bound to Gle1 and IP6==
-	<StructureSection load='3pev' size='340' side='right' caption='[[3pev]], [[Resolution\|resolution]] 2.50Å' scene=''>	+	<StructureSection load='3pev' size='340' side='right'caption='[[3pev]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3pev]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PEV OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3PEV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3pev]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PEV OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=3PEV 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>, <scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</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>, <scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DBP5, RAT8, YOR046C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824]), BRR3, D1049, GLE1, RSS1, YDL207W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DBP5, RAT8, YOR046C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824]), BRR3, D1049, GLE1, RSS1, YDL207W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </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=3pev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pev OCA], [http://pdbe.org/3pev PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3pev RCSB], [http://www.ebi.ac.uk/pdbsum/3pev PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3pev ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=3pev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pev OCA], [http://pdbe.org/3pev PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3pev RCSB], [http://www.ebi.ac.uk/pdbsum/3pev PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3pev ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 21:		Line 21:
	</div>		</div>
	<div class="pdbe-citations 3pev" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3pev" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Helicase 3D structures\|Helicase 3D structures]]
		+	*[[Nucleoporin 3D structures\|Nucleoporin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 26:		Line 30:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 18824]]		[[Category: Atcc 18824]]
		+	[[Category: Large Structures]]
	[[Category: RNA helicase]]		[[Category: RNA helicase]]
	[[Category: Berger, J M]]		[[Category: Berger, J M]]

OCA at 08:58, 8 November 2017

OCA — Wed, 08 Nov 2017 08:58:23 GMT

←Older revision		Revision as of 08:58, 8 November 2017
Line 21:		Line 21:
	</div>		</div>
	<div class="pdbe-citations 3pev" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3pev" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Helicase\|Helicase]]
-	*[[Nucleoporin\|Nucleoporin]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 10:13, 4 August 2016

OCA — Thu, 04 Aug 2016 10:13:10 GMT

←Older revision		Revision as of 10:13, 4 August 2016
Line 1:		Line 1:
		+
	==S. cerevisiae Dbp5 L327V C-terminal domain bound to Gle1 and IP6==		==S. cerevisiae Dbp5 L327V C-terminal domain bound to Gle1 and IP6==
	<StructureSection load='3pev' size='340' side='right' caption='[[3pev]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='3pev' size='340' side='right' caption='[[3pev]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3pev]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Saccharomyces_cerevisiae Saccharomyces cerevisiae~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PEV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PEV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3pev]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PEV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PEV 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>, <scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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>, <scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DBP5, RAT8, YOR046C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ~~Saccharomyces cerevisiae~~]), BRR3, D1049, GLE1, RSS1, YDL207W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ~~Saccharomyces cerevisiae~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DBP5, RAT8, YOR046C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824]), BRR3, D1049, GLE1, RSS1, YDL207W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </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=3pev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pev OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pev RCSB], [http://www.ebi.ac.uk/pdbsum/3pev 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=3pev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pev OCA], [http://pdbe.org/3pev PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3pev RCSB], [http://www.ebi.ac.uk/pdbsum/3pev PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3pev 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 3pev" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 27:		Line 29:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Atcc 18824]]
	[[Category: RNA helicase]]		[[Category: RNA helicase]]
-	[[Category: Saccharomyces cerevisiae]]
	[[Category: Berger, J M]]		[[Category: Berger, J M]]
	[[Category: Helmke, K J]]		[[Category: Helmke, K J]]

OCA at 08:14, 25 December 2014

OCA — Thu, 25 Dec 2014 08:14:22 GMT

←Older revision		Revision as of 08:14, 25 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=3pev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pev OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pev RCSB], [http://www.ebi.ac.uk/pdbsum/3pev 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=3pev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pev OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pev RCSB], [http://www.ebi.ac.uk/pdbsum/3pev PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DBP5_YEAST DBP5_YEAST]] ATP-dependent RNA helicase associated with the nuclear pore complex and essential for mRNA export from the nucleus. May participate in a terminal step of mRNA export through the removal of proteins that accompany mRNA through the nucleopore complex. Contributes to the blocking of bulk poly(A)+ mRNA export in ethanol-stressed cells. May also be involved in early transcription.<ref>PMID:9564047</ref> <ref>PMID:9564048</ref> <ref>PMID:10428971</ref> <ref>PMID:10610322</ref> <ref>PMID:10523319</ref> <ref>PMID:11350039</ref> <ref>PMID:12192043</ref> <ref>PMID:12686617</ref> <ref>PMID:15280434</ref> <ref>PMID:15574330</ref> <ref>PMID:15619606</ref> [[http://www.uniprot.org/uniprot/GLE1_YEAST GLE1_YEAST]] Functions as a component of the nuclear pore complex (NPC). NPC components, collectively referred to as nucleoporins (NUPs), can play the role of both NPC structural components and of docking or interaction partners for transiently associated nuclear transport factors. It is specifically involved in a terminal step of poly(A)+ mRNA transport through the NPC probably by binding the ATP-dependent RNA helicase DBP5 and GFD1 at the cytoplasmic side of the NPC. These interactions are thought to be important for the dissociation of transport proteins such as the heterogeneous nuclear ribonuleoprotein (hnRNP) NAB2 from exported mRNA.<ref>PMID:10523319</ref> <ref>PMID:10610322</ref> <ref>PMID:10684247</ref> <ref>PMID:11336711</ref> <ref>PMID:15208322</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 11:28, 9 December 2014

OCA — Tue, 09 Dec 2014 11:28:27 GMT

←Older revision		Revision as of 11:28, 9 December 2014
Line 1:		Line 1:
-	[[~~Image:~~3pev.~~png~~\|~~left~~\|~~200px~~]]	+	==S. cerevisiae Dbp5 L327V C-terminal domain bound to Gle1 and IP6==
		+	<StructureSection load='3pev' size='340' side='right' caption='[[3pev]], [[Resolution\|resolution]] 2.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3pev]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PEV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PEV 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>, <scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DBP5, RAT8, YOR046C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae]), BRR3, D1049, GLE1, RSS1, YDL207W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </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=3pev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pev OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pev RCSB], [http://www.ebi.ac.uk/pdbsum/3pev PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Superfamily 1 and superfamily 2 RNA helicases are ubiquitous messenger-RNA-protein complex (mRNP) remodelling enzymes that have critical roles in all aspects of RNA metabolism. The superfamily 2 DEAD-box ATPase Dbp5 (human DDX19) functions in mRNA export and is thought to remodel mRNPs at the nuclear pore complex (NPC). Dbp5 is localized to the NPC via an interaction with Nup159 (NUP214 in vertebrates) and is locally activated there by Gle1 together with the small-molecule inositol hexakisphosphate (InsP(6)). Local activation of Dbp5 at the NPC by Gle1 is essential for mRNA export in vivo; however, the mechanistic role of Dbp5 in mRNP export is poorly understood and it is not known how Gle1(InsP6) and Nup159 regulate the activity of Dbp5. Here we report, from yeast, structures of Dbp5 in complex with Gle1(InsP6), Nup159/Gle1(InsP6) and RNA. These structures reveal that InsP(6) functions as a small-molecule tether for the Gle1-Dbp5 interaction. Surprisingly, the Gle1(InsP6)-Dbp5 complex is structurally similar to another DEAD-box ATPase complex essential for translation initiation, eIF4G-eIF4A, and we demonstrate that Gle1(InsP6) and eIF4G both activate their DEAD-box partner by stimulating RNA release. Furthermore, Gle1(InsP6) relieves Dbp5 autoregulation and cooperates with Nup159 in stabilizing an open Dbp5 intermediate that precludes RNA binding. These findings explain how Gle1(InsP6), Nup159 and Dbp5 collaborate in mRNA export and provide a general mechanism for DEAD-box ATPase regulation by Gle1/eIF4G-like activators.

-	~~{{STRUCTURE_3pev\| PDB=3pev \| SCENE= }}~~	+	A conserved mechanism of DEAD-box ATPase activation by nucleoporins and InsP6 in mRNA export.,Montpetit B, Thomsen ND, Helmke KJ, Seeliger MA, Berger JM, Weis K Nature. 2011 Apr 14;472(7342):238-42. Epub 2011 Mar 27. PMID:21441902<ref>PMID:21441902</ref>

-	~~===S. cerevisiae Dbp5 L327V C-terminal domain bound to Gle1 and IP6===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_21441902}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3pev]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3PEV OCA].~~	+

	==See Also==		==See Also==
	*[[Helicase\|Helicase]]		*[[Helicase\|Helicase]]
	*[[Nucleoporin\|Nucleoporin]]		*[[Nucleoporin\|Nucleoporin]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:021441902<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: RNA helicase]]		[[Category: RNA helicase]]
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
-	[[Category: Berger, J M.]]	+	[[Category: Berger, J M]]
-	[[Category: Helmke, K J.]]	+	[[Category: Helmke, K J]]
-	[[Category: Montpetit, B.]]	+	[[Category: Montpetit, B]]
-	[[Category: Seeliger, M A.]]	+	[[Category: Seeliger, M A]]
-	[[Category: Thomsen, N D.]]	+	[[Category: Thomsen, N D]]
-	[[Category: Weis, K.]]	+	[[Category: Weis, K]]
	[[Category: Atpase]]		[[Category: Atpase]]
	[[Category: Dead-box]]		[[Category: Dead-box]]

OCA at 14:32, 20 October 2012

OCA — Sat, 20 Oct 2012 14:32:15 GMT

←Older revision		Revision as of 14:32, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3pev]] is a 2 chain structure ~~of [[Helicase]] and [[Nucleoporin]]~~ with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PEV OCA].	+	[[3pev]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PEV OCA].

	==See Also==		==See Also==

OCA at 15:28, 26 July 2012

OCA — Thu, 26 Jul 2012 15:28:07 GMT

←Older revision		Revision as of 15:28, 26 July 2012
Line 1:		Line 1:
	[[Image:3pev.png\|left\|200px]]		[[Image:3pev.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3pev", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_3pev\| PDB=3pev \| SCENE= }}		{{STRUCTURE_3pev\| PDB=3pev \| SCENE= }}

	===S. cerevisiae Dbp5 L327V C-terminal domain bound to Gle1 and IP6===		===S. cerevisiae Dbp5 L327V C-terminal domain bound to Gle1 and IP6===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_21441902}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 21441902 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_21441902}}		{{ABSTRACT_PUBMED_21441902}}

	==About this Structure==		==About this Structure==
-	[[3pev]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PEV OCA].	+	[[3pev]] is a 2 chain structure of [[Helicase]] and [[Nucleoporin]] with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PEV OCA].
		+
		+	==See Also==
		+	*[[Helicase\|Helicase]]
		+	*[[Nucleoporin\|Nucleoporin]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~21441902~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:021441902</ref><references group="xtra"/>
	[[Category: RNA helicase]]		[[Category: RNA helicase]]
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
Line 31:		Line 24:
	[[Category: Thomsen, N D.]]		[[Category: Thomsen, N D.]]
	[[Category: Weis, K.]]		[[Category: Weis, K.]]
		+	[[Category: Atpase]]
		+	[[Category: Dead-box]]
		+	[[Category: Heat]]
		+	[[Category: Helicase]]
		+	[[Category: Hydrolase]]
		+	[[Category: Mrna export]]
		+	[[Category: Nuclear pore]]
		+	[[Category: Reca]]

OCA at 06:35, 27 April 2011

OCA — Wed, 27 Apr 2011 06:35:45 GMT

←Older revision		Revision as of 06:35, 27 April 2011
Line 1:		Line 1:
-	[[Image:3pev.~~jpg~~\|left\|200px]]	+	[[Image:3pev.png\|left\|200px]]

	<!--		<!--
Line 11:		Line 11:
	===S. cerevisiae Dbp5 L327V C-terminal domain bound to Gle1 and IP6===		===S. cerevisiae Dbp5 L327V C-terminal domain bound to Gle1 and IP6===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21441902}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21441902 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21441902}}

	==About this Structure==		==About this Structure==
	[[3pev]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PEV OCA].		[[3pev]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PEV OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:21441902</ref><references group="xtra"/>
	[[Category: RNA helicase]]		[[Category: RNA helicase]]
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]

OCA at 07:19, 23 March 2011

OCA — Wed, 23 Mar 2011 07:19:18 GMT

←Older revision		Revision as of 07:19, 23 March 2011
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3pev.jpg\|left\|200px]]

-	The ~~entry 3pev~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3pev", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_3pev\| PDB=3pev \| SCENE= }}

-	~~Authors: Montpetit, B., Thomsen, N.D., Helmke, K.J., Seeliger, M.A., Berger, J.M., Weis, K~~.	+	===S. cerevisiae Dbp5 L327V C-terminal domain bound to Gle1 and IP6===

-	~~Description~~: S. cerevisiae ~~Dbp5 L327V C~~-~~terminal domain bound to Gle1 and IP6~~	+
		+	==About this Structure==
		+	[[3pev]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PEV OCA].
		+	[[Category: RNA helicase]]
		+	[[Category: Saccharomyces cerevisiae]]
		+	[[Category: Berger, J M.]]
		+	[[Category: Helmke, K J.]]
		+	[[Category: Montpetit, B.]]
		+	[[Category: Seeliger, M A.]]
		+	[[Category: Thomsen, N D.]]
		+	[[Category: Weis, K.]]

←Older revision		Revision as of 07:34, 20 July 2022
Line 3:		Line 3:
	<StructureSection load='3pev' size='340' side='right'caption='[[3pev]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='3pev' size='340' side='right'caption='[[3pev]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3pev]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PEV OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=3PEV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3pev]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PEV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PEV FirstGlance]. <br>
	</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>, <scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</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>, <scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DBP5, RAT8, YOR046C ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824]), BRR3, D1049, GLE1, RSS1, YDL207W ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DBP5, RAT8, YOR046C ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824]), BRR3, D1049, GLE1, RSS1, YDL207W ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=3pev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pev OCA], [~~http~~://pdbe.org/3pev PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3pev RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3pev PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3pev 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=3pev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pev OCA], [https://pdbe.org/3pev PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3pev RCSB], [https://www.ebi.ac.uk/pdbsum/3pev PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3pev ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/DBP5_YEAST DBP5_YEAST]] ATP-dependent RNA helicase associated with the nuclear pore complex and essential for mRNA export from the nucleus. May participate in a terminal step of mRNA export through the removal of proteins that accompany mRNA through the nucleopore complex. Contributes to the blocking of bulk poly(A)+ mRNA export in ethanol-stressed cells. May also be involved in early transcription.<ref>PMID:9564047</ref> <ref>PMID:9564048</ref> <ref>PMID:10428971</ref> <ref>PMID:10610322</ref> <ref>PMID:10523319</ref> <ref>PMID:11350039</ref> <ref>PMID:12192043</ref> <ref>PMID:12686617</ref> <ref>PMID:15280434</ref> <ref>PMID:15574330</ref> <ref>PMID:15619606</ref> [[~~http~~://www.uniprot.org/uniprot/GLE1_YEAST GLE1_YEAST]] Functions as a component of the nuclear pore complex (NPC). NPC components, collectively referred to as nucleoporins (NUPs), can play the role of both NPC structural components and of docking or interaction partners for transiently associated nuclear transport factors. It is specifically involved in a terminal step of poly(A)+ mRNA transport through the NPC probably by binding the ATP-dependent RNA helicase DBP5 and GFD1 at the cytoplasmic side of the NPC. These interactions are thought to be important for the dissociation of transport proteins such as the heterogeneous nuclear ribonuleoprotein (hnRNP) NAB2 from exported mRNA.<ref>PMID:10523319</ref> <ref>PMID:10610322</ref> <ref>PMID:10684247</ref> <ref>PMID:11336711</ref> <ref>PMID:15208322</ref>	+	[[https://www.uniprot.org/uniprot/DBP5_YEAST DBP5_YEAST]] ATP-dependent RNA helicase associated with the nuclear pore complex and essential for mRNA export from the nucleus. May participate in a terminal step of mRNA export through the removal of proteins that accompany mRNA through the nucleopore complex. Contributes to the blocking of bulk poly(A)+ mRNA export in ethanol-stressed cells. May also be involved in early transcription.<ref>PMID:9564047</ref> <ref>PMID:9564048</ref> <ref>PMID:10428971</ref> <ref>PMID:10610322</ref> <ref>PMID:10523319</ref> <ref>PMID:11350039</ref> <ref>PMID:12192043</ref> <ref>PMID:12686617</ref> <ref>PMID:15280434</ref> <ref>PMID:15574330</ref> <ref>PMID:15619606</ref> [[https://www.uniprot.org/uniprot/GLE1_YEAST GLE1_YEAST]] Functions as a component of the nuclear pore complex (NPC). NPC components, collectively referred to as nucleoporins (NUPs), can play the role of both NPC structural components and of docking or interaction partners for transiently associated nuclear transport factors. It is specifically involved in a terminal step of poly(A)+ mRNA transport through the NPC probably by binding the ATP-dependent RNA helicase DBP5 and GFD1 at the cytoplasmic side of the NPC. These interactions are thought to be important for the dissociation of transport proteins such as the heterogeneous nuclear ribonuleoprotein (hnRNP) NAB2 from exported mRNA.<ref>PMID:10523319</ref> <ref>PMID:10610322</ref> <ref>PMID:10684247</ref> <ref>PMID:11336711</ref> <ref>PMID:15208322</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==