5dca - Revision history

OCA at 11:25, 10 January 2024

2024-01-10T11:25:40Z

← Older revision		Revision as of 11:25, 10 January 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5dca]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DCA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5DCA FirstGlance]. <br>		<table><tr><td colspan='2'>[[5dca]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DCA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5DCA 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=5dca FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dca OCA], [https://pdbe.org/5dca PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5dca RCSB], [https://www.ebi.ac.uk/pdbsum/5dca PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5dca ProSAT]</span></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]] 2.8Å</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=5dca FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dca OCA], [https://pdbe.org/5dca PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5dca RCSB], [https://www.ebi.ac.uk/pdbsum/5dca PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5dca ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 10:30, 21 June 2023

2023-06-21T10:30:04Z

← Older revision		Revision as of 10:30, 21 June 2023
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	==Crystal structure of yeast full length Brr2 in complex with Prp8 Jab1 domain==		==Crystal structure of yeast full length Brr2 in complex with Prp8 Jab1 domain==
	<StructureSection load='5dca' size='340' side='right' caption='[[5dca]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='5dca' size='340' side='right'caption='[[5dca]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5dca]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Baker's_yeast Baker's yeast~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DCA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5DCA FirstGlance]. <br>		<table><tr><td colspan='2'>[[5dca]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DCA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5DCA FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BRR2, RSS1, SNU246, YER172C, SYGP-ORF66 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast]), PRP8, DBF3, DNA39, RNA8, SLT21, USA2, YHR165C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])</td></tr>		</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=5dca FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dca OCA], [https://pdbe.org/5dca PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5dca RCSB], [https://www.ebi.ac.uk/pdbsum/5dca PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5dca ProSAT]</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=5dca FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dca OCA], [~~http~~://pdbe.org/5dca PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5dca RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5dca PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5dca ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[~~[http~~://www.uniprot.org/uniprot/BRR2_YEAST BRR2_YEAST]] RNA helicase that plays an essential role in pre-mRNA splicing as component of the U5 snRNP and U4/U6-U5 tri-snRNP complexes. Involved in spliceosome assembly, activation and disassembly. Mediates changes in the dynamic network of RNA-RNA interactions in the spliceosome. Catalyzes the ATP-dependent unwinding of U4/U6 RNA duplices, an essential step in the assembly of a catalytically active spliceosome.<ref>PMID:19098916</ref> <ref>PMID:23124065</ref> <ref>PMID:19716790</ref> <ref>PMID:19525970</ref> [[http://www.uniprot.org/uniprot/PRP8_YEAST PRP8_YEAST]] Required for pre-spliceosome formation, which is the first step of pre-mRNA splicing. This protein is associated with snRNP U5. Has a role in branch site-3' splice site selection. Associates with the branch site-3' splice 3'-exon region. Also has a role in cell cycle.<ref>PMID:2835658</ref> <ref>PMID:9150140</ref> <ref>PMID:12773561</ref> <ref>PMID:18779563</ref>		[https://www.uniprot.org/uniprot/BRR2_YEAST BRR2_YEAST] RNA helicase that plays an essential role in pre-mRNA splicing as component of the U5 snRNP and U4/U6-U5 tri-snRNP complexes. Involved in spliceosome assembly, activation and disassembly. Mediates changes in the dynamic network of RNA-RNA interactions in the spliceosome. Catalyzes the ATP-dependent unwinding of U4/U6 RNA duplices, an essential step in the assembly of a catalytically active spliceosome.<ref>PMID:19098916</ref> <ref>PMID:23124065</ref> <ref>PMID:19716790</ref> <ref>PMID:19525970</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	==See Also==		==See Also==
	*[[Helicase\|Helicase]]		*[[Helicase 3D structures\|Helicase 3D structures]]
	*[[Pre-mRNA-splicing ~~factor~~\|Pre-mRNA-splicing ~~factor~~]]		*[[Pre-mRNA splicing factors 3D structures\|Pre-mRNA splicing factors 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Baker's yeast~~]]		[[Category: Large Structures]]
	[[Category: ~~RNA helicase~~]]		[[Category: Saccharomyces cerevisiae S288C]]
	[[Category: Absmeier, E]]		[[Category: Absmeier E]]
	[[Category: Santos~~, K F~~]]		[[Category: Santos KF]]
	[[Category: Wahl~~, M C~~]]		[[Category: Wahl MC]]
	[[Category: Wollenhaupt, J]]		[[Category: Wollenhaupt J]]
	~~[[Category: Helicase]]~~
	~~[[Category: Hydrolase]]~~
	~~[[Category: Protein complex]]~~
	~~[[Category: Rnp remodeling]]~~
	~~[[Category: Spliceosome activation~~]]

OCA at 06:04, 8 March 2018

2018-03-08T06:04:01Z

← Older revision		Revision as of 06:04, 8 March 2018
Line 1:		Line 1:

	==Crystal structure of yeast full length Brr2 in complex with Prp8 Jab1 domain==		==Crystal structure of yeast full length Brr2 in complex with Prp8 Jab1 domain==
	<StructureSection load='5dca' size='340' side='right' caption='[[5dca]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='5dca' size='340' side='right' caption='[[5dca]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5dca]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DCA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5DCA FirstGlance]. <br>		<table><tr><td colspan='2'>[[5dca]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DCA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5DCA 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/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>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BRR2, RSS1, SNU246, YER172C, SYGP-ORF66 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast]), PRP8, DBF3, DNA39, RNA8, SLT21, USA2, YHR165C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])</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=5dca FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dca OCA], [http://pdbe.org/5dca PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5dca RCSB], [http://www.ebi.ac.uk/pdbsum/5dca PDBsum]</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=5dca FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dca OCA], [http://pdbe.org/5dca PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5dca RCSB], [http://www.ebi.ac.uk/pdbsum/5dca PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5dca ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	</div>		</div>
	<div class="pdbe-citations 5dca" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5dca" style="background-color:#fffaf0;"></div>

			==See Also==
			*[[Helicase\|Helicase]]
			*[[Pre-mRNA-splicing factor\|Pre-mRNA-splicing factor]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Baker's yeast]]
	[[Category: RNA helicase]]		[[Category: RNA helicase]]
	[[Category: Absmeier, E]]		[[Category: Absmeier, E]]

OCA at 13:46, 16 December 2015

2015-12-16T13:46:08Z

← Older revision		Revision as of 13:46, 16 December 2015
Line 1:		Line 1:
	'''~~Unreleased~~ structure'''		==Crystal structure of yeast full length Brr2 in complex with Prp8 Jab1 domain==
			<StructureSection load='5dca' size='340' side='right' caption='[[5dca]], [[Resolution\|resolution]] 2.80Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[5dca]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DCA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5DCA 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/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=5dca FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dca OCA], [http://pdbe.org/5dca PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5dca RCSB], [http://www.ebi.ac.uk/pdbsum/5dca PDBsum]</span></td></tr>
			</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/BRR2_YEAST BRR2_YEAST]] RNA helicase that plays an essential role in pre-mRNA splicing as component of the U5 snRNP and U4/U6-U5 tri-snRNP complexes. Involved in spliceosome assembly, activation and disassembly. Mediates changes in the dynamic network of RNA-RNA interactions in the spliceosome. Catalyzes the ATP-dependent unwinding of U4/U6 RNA duplices, an essential step in the assembly of a catalytically active spliceosome.<ref>PMID:19098916</ref> <ref>PMID:23124065</ref> <ref>PMID:19716790</ref> <ref>PMID:19525970</ref> [[http://www.uniprot.org/uniprot/PRP8_YEAST PRP8_YEAST]] Required for pre-spliceosome formation, which is the first step of pre-mRNA splicing. This protein is associated with snRNP U5. Has a role in branch site-3' splice site selection. Associates with the branch site-3' splice 3'-exon region. Also has a role in cell cycle.<ref>PMID:2835658</ref> <ref>PMID:9150140</ref> <ref>PMID:12773561</ref> <ref>PMID:18779563</ref>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			The Brr2 helicase provides the key remodeling activity for spliceosome catalytic activation, during which it disrupts the U4/U6 di-snRNP (small nuclear RNA protein), and its activity has to be tightly regulated. Brr2 exhibits an unusual architecture, including an approximately 500-residue N-terminal region, whose functions and molecular mechanisms are presently unknown, followed by a tandem array of structurally similar helicase units (cassettes), only the first of which is catalytically active. Here, we show by crystal structure analysis of full-length Brr2 in complex with a regulatory Jab1/MPN domain of the Prp8 protein and by cross-linking/mass spectrometry of isolated Brr2 that the Brr2 N-terminal region encompasses two folded domains and adjacent linear elements that clamp and interconnect the helicase cassettes. Stepwise N-terminal truncations led to yeast growth and splicing defects, reduced Brr2 association with U4/U6*U5 tri-snRNPs, and increased ATP-dependent disruption of the tri-snRNP, yielding U4/U6 di-snRNP and U5 snRNP. Trends in the RNA-binding, ATPase, and helicase activities of the Brr2 truncation variants are fully rationalized by the crystal structure, demonstrating that the N-terminal region autoinhibits Brr2 via substrate competition and conformational clamping. Our results reveal molecular mechanisms that prevent premature and unproductive tri-snRNP disruption and suggest novel principles of Brr2-dependent splicing regulation.

	The ~~entry 5dca is ON HOLD until Paper Publication~~		The large N-terminal region of the Brr2 RNA helicase guides productive spliceosome activation.,Absmeier E, Wollenhaupt J, Mozaffari-Jovin S, Becke C, Lee CT, Preussner M, Heyd F, Urlaub H, Luhrmann R, Santos KF, Wahl MC Genes Dev. 2015 Dec 4. PMID:26637280<ref>PMID:26637280</ref>

	~~Authors~~: Absmeier, E~~., Wollenhaupt, J.,~~ Santos, K.F~~., Wahl, M.C.~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~Description:~~		<div class="pdbe-citations 5dca" style="background-color:#fffaf0;"></div>
	[[Category: ~~Unreleased Structures~~]]		== References ==
			<references/>
			__TOC__
			</StructureSection>
			[[Category: RNA helicase]]
			[[Category: Absmeier, E]]
			[[Category: Santos, K F]]
			[[Category: Wahl, M C]]
	[[Category: Wollenhaupt, J]]		[[Category: Wollenhaupt, J]]
	[[Category: ~~Wahl, M.C~~]]		[[Category: Helicase]]
	[[Category: ~~Absmeier, E~~]]		[[Category: Hydrolase]]
	[[Category: ~~Santos, K.F~~]]		[[Category: Protein complex]]
			[[Category: Rnp remodeling]]
			[[Category: Spliceosome activation]]

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

2015-09-02T11:26:48Z

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

← Older revision	Revision as of 11:26, 2 September 2015
(No difference)

OCA: New page: '''Unreleased structure''' The entry 5dca is ON HOLD until Paper Publication Authors: Absmeier, E., Wollenhaupt, J., Santos, K.F., Wahl, M.C. Description: [[Category: Unreleased Struc...

2015-09-02T11:26:47Z

New page: '''Unreleased structure''' The entry 5dca is ON HOLD until Paper Publication Authors: Absmeier, E., Wollenhaupt, J., Santos, K.F., Wahl, M.C. Description: [[Category: Unreleased Struc...

New page

'''Unreleased structure'''

The entry 5dca is ON HOLD until Paper Publication

Authors: Absmeier, E., Wollenhaupt, J., Santos, K.F., Wahl, M.C.

Description:
[[Category: Unreleased Structures]]
[[Category: Wollenhaupt, J]]
[[Category: Wahl, M.C]]
[[Category: Absmeier, E]]
[[Category: Santos, K.F]]