5zwn - Revision history

OCA at 10:29, 27 March 2024

OCA — Wed, 27 Mar 2024 10:29:22 GMT

←Older revision		Revision as of 10:29, 27 March 2024
Line 3:		Line 3:
	<SX load='5zwn' size='340' side='right' viewer='molstar' caption='[[5zwn]], [[Resolution\|resolution]] 3.30Å' scene=''>		<SX load='5zwn' size='340' side='right' viewer='molstar' caption='[[5zwn]], [[Resolution\|resolution]] 3.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5zwn]] is a 20 chain structure with sequence from [~~http~~://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=5ZWN OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5ZWN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5zwn]] is a 10 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=5ZWN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5ZWN FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ZN:ZINC+ION'>ZN</scene>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 3.3Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5zwm\|5zwm]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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'>[https://proteopedia.org/fgij/fg.htm?mol=5zwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zwn OCA], [https://pdbe.org/5zwn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5zwn RCSB], [https://www.ebi.ac.uk/pdbsum/5zwn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5zwn 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=5zwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zwn OCA], [~~http~~://pdbe.org/5zwn PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5zwn RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5zwn PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5zwn ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/PRP42_YEAST PRP42_YEAST]] Essential component of the U1 snRNP particle, which recognizes and binds the 5'-splice site of pre-mRNA. Together with other non-snRNP factors, U1 snRNP forms the spliceosomal commitment complex, that targets pre-mRNA to the splicing pathway. U1 snRNP is cotranscriptionally recruited to intron-containing genes. Required for U1 snRNP biogenesis.<ref>PMID:12897147</ref> <ref>PMID:9418882</ref> [[http://www.uniprot.org/uniprot/SMD1_YEAST SMD1_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. Also binds telomerase RNA and is required for its accumulation.<ref>PMID:10490028</ref> <ref>PMID:8430095</ref> [[http://www.uniprot.org/uniprot/RU17_YEAST RU17_YEAST]] Involved in nuclear mRNA splicing. [[http://www.uniprot.org/uniprot/PRP39_YEAST PRP39_YEAST]] Function prior to stable branch point recognition by the U1 snRNP particle to facilitate or stabilize the U1 snRNP/5'-splice site interaction. Has a direct role in the assembly or function of a catalytically active spliceosome. [[http://www.uniprot.org/uniprot/SNU56_YEAST SNU56_YEAST]] Component of the U1 snRNP particle, which recognizes and binds the 5'-splice site of pre-mRNA. Together with other non-snRNP factors, U1 snRNP forms the spliceosomal commitment complex, that targets pre-mRNA to the splicing pathway. [[http://www.uniprot.org/uniprot/SNU71_YEAST SNU71_YEAST]] Component of the U1 snRNP particle, which recognizes and binds the 5'-splice site of pre-mRNA. Together with other non-snRNP factors, U1 snRNP forms the spliceosomal commitment complex, that targets pre-mRNA to the splicing pathway.<ref>PMID:11877437</ref> [[http://www.uniprot.org/uniprot/SMD2_YEAST SMD2_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. [[http://www.uniprot.org/uniprot/PRP28_YEAST PRP28_YEAST]] ATP-dependent RNA helicase involved in mRNA splicing. May destabilize the U1/5'-splice site duplex to permit an effective competition for the 5'-splice site by the U6 snRNA, resulting in the switch between U1 and U6 at the 5'-splice site. May also act to unwind the U4/U6 base-pairing interaction in the U4/U6/U5 snRNP, facilitating the first covalent step of splicing.<ref>PMID:10024879</ref> <ref>PMID:11172727</ref> <ref>PMID:2010088</ref> [[http://www.uniprot.org/uniprot/RUXF_YEAST RUXF_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. [[http://www.uniprot.org/uniprot/RUXE_YEAST RUXE_YEAST]] Involved in pre-mRNA splicing. Binds and is required for the stability of snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. Involved in cap modification.<ref>PMID:8918241</ref> [[http://www.uniprot.org/uniprot/NAM8_YEAST NAM8_YEAST]] Acts as a suppressor of mitochondrial splicing deficiencies when overexpressed. Could be a non-essential component of the mitochondrial splicing machinery. [[http://www.uniprot.org/uniprot/RU1C_YEAST RU1C_YEAST]] Component of the spliceosomal U1 snRNP, which is essential for recognition of the pre-mRNA 5' splice-site and the subsequent assembly of the spliceosome. YHC1/U1-C is directly involved in initial 5' splice-site recognition for both constitutive and regulated alternative splicing. The interaction with the 5' splice-site seems to precede base-pairing between the pre-mRNA and the U1 snRNA. Stimulates commitment or early (E) complex formation by stabilizing the base pairing of the 5' end of the U1 snRNA and the 5' splice-site region.<ref>PMID:10072386</ref> <ref>PMID:12214237</ref> <ref>PMID:9233817</ref> [[http://www.uniprot.org/uniprot/LUC7_YEAST LUC7_YEAST]] Component of the U1 snRNP particle, which recognizes and binds the 5'-splice site of pre-mRNA. Together with other non-snRNP factors, U1 snRNP forms the spliceosomal commitment complex, that targets pre-mRNA to the splicing pathway.<ref>PMID:10500099</ref> <ref>PMID:10533282</ref> [[http://www.uniprot.org/uniprot/RSMB_YEAST RSMB_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. [[http://www.uniprot.org/uniprot/SMD3_YEAST SMD3_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. Also binds telomerase RNA and is required for its accumulation.<ref>PMID:10490028</ref> <ref>PMID:7799953</ref> [[http://www.uniprot.org/uniprot/RUXG_YEAST RUXG_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. [[http://www.uniprot.org/uniprot/RU1A_YEAST RU1A_YEAST]] Involved in nuclear mRNA splicing. The principal role of the U1A is to help fold or maintain U1 RNA in an active configuration. It is the first snRNP to interact with pre-mRNA. This interaction is required for the subsequent binding of U2 snRNP and the U4/U6/U5 tri-snRNP.<ref>PMID:8449403</ref> <ref>PMID:8849781</ref>	+	[https://www.uniprot.org/uniprot/RU17_YEAST RU17_YEAST] Involved in nuclear mRNA splicing.
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	The precatalytic spliceosome (B complex) is preceded by the pre-B complex. Here we report the cryo-electron microscopy structures of the Saccharomyces cerevisiae pre-B and B complexes at average resolutions of 3.3 to 4.6 and 3.9 angstroms, respectively. In the pre-B complex, the duplex between the 5' splice site (5'SS) and U1 small nuclear RNA (snRNA) is recognized by Yhc1, Luc7, and the Sm ring. In the B complex, U1 small nuclear ribonucleoprotein is dissociated, the 5'-exon-5'SS sequences are translocated near U6 snRNA, and three B-specific proteins may orient the precursor messenger RNA. In both complexes, U6 snRNA is anchored to loop I of U5 snRNA, and the duplex between the branch point sequence and U2 snRNA is recognized by the SF3b complex. Structural analysis reveals the mechanism of assembly and activation for the yeast spliceosome.	+

-	Structures of the fully assembled Saccharomyces cerevisiae spliceosome before activation.,Bai R, Wan R, Yan C, Lei J, Shi Y Science. 2018 Jun 29;360(6396):1423-1429. doi: 10.1126/science.aau0325. Epub 2018, May 24. PMID:29794219<ref>PMID:29794219</ref>	+	==See Also==
-		+	*[[Nucleoprotein 3D structures\|Nucleoprotein 3D structures]]
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+	*[[Sm-like protein 3D structures\|Sm-like protein 3D structures]]
-	~~</div>~~	+
-	~~<div class~~=~~"pdbe-citations 5zwn" style~~=~~"background-color:#fffaf0;"></div>~~	+
-	~~== References~~ ==	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</SX>		</SX>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: RNA helicase]]~~	+	[[Category: Saccharomyces cerevisiae S288C]]
-	[[Category: Saccharomyces cerevisiae ~~s288c~~]]	+	[[Category: Bai R]]
-	[[Category: Bai, R]]	+	[[Category: Lei J]]
-	[[Category: Lei, J]]	+	[[Category: Shi Y]]
-	[[Category: Shi, Y]]	+	[[Category: Wan R]]
-	[[Category: Wan, R]]	+	[[Category: Yan C]]
-	[[Category: Yan, C]]	+
-	~~[[Category: Assemply]]~~	+
-	~~[[Category: Pre-b complex]]~~	+
-	~~[[Category: Spliceosme]]~~	+
-	~~[[Category: Splicing]]~~	+
-	~~[[Category: U1 snrnp~~]]	+

OCA at 22:56, 10 April 2020

OCA — Fri, 10 Apr 2020 22:56:07 GMT

←Older revision		Revision as of 22:56, 10 April 2020
Line 3:		Line 3:
	<SX load='5zwn' size='340' side='right' viewer='molstar' caption='[[5zwn]], [[Resolution\|resolution]] 3.30Å' scene=''>		<SX load='5zwn' size='340' side='right' viewer='molstar' caption='[[5zwn]], [[Resolution\|resolution]] 3.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5zwn]] is a 20 chain structure with sequence from [http://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=5ZWN OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5ZWN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5zwn]] is a 20 chain structure with sequence from [http://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=5ZWN OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5ZWN FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5zwm\|5zwm]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5zwm\|5zwm]]</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=5zwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zwn OCA], [http://pdbe.org/5zwn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zwn RCSB], [http://www.ebi.ac.uk/pdbsum/5zwn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zwn 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=5zwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zwn OCA], [http://pdbe.org/5zwn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zwn RCSB], [http://www.ebi.ac.uk/pdbsum/5zwn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zwn ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 20:19, 6 March 2020

OCA — Fri, 06 Mar 2020 20:19:33 GMT

←Older revision		Revision as of 20:19, 6 March 2020
Line 1:		Line 1:

	==Cryo-EM structure of the yeast pre-B complex at an average resolution of 3.3 angstrom (Part II: U1 snRNP region)==		==Cryo-EM structure of the yeast pre-B complex at an average resolution of 3.3 angstrom (Part II: U1 snRNP region)==
-	<~~StructureSection~~ load='5zwn' size='340' side='right'caption='[[5zwn]], [[Resolution\|resolution]] 3.30Å' scene=''>	+	<SX load='5zwn' size='340' side='right' viewer='molstar' caption='[[5zwn]], [[Resolution\|resolution]] 3.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5zwn]] is a 20 chain structure with sequence from [http://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=5ZWN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZWN FirstGlance]. <br>		<table><tr><td colspan='2'>[[5zwn]] is a 20 chain structure with sequence from [http://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=5ZWN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZWN FirstGlance]. <br>
Line 10:		Line 10:
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/~~SMD1_YEAST SMD1_YEAST~~]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. Also binds telomerase RNA and is required for its accumulation.<ref>PMID:10490028</ref> <ref>PMID:8430095</ref> [[http://www.uniprot.org/uniprot/PRP39_YEAST PRP39_YEAST]] Function prior to stable branch point recognition by the U1 snRNP particle to facilitate or stabilize the U1 snRNP/5'-splice site interaction. Has a direct role in the assembly or function of a catalytically active spliceosome. [[http://www.uniprot.org/uniprot/SNU71_YEAST SNU71_YEAST]] Component of the U1 snRNP particle, which recognizes and binds the 5'-splice site of pre-mRNA. Together with other non-snRNP factors, U1 snRNP forms the spliceosomal commitment complex, that targets pre-mRNA to the splicing pathway.~~<ref>PMID:11877437</ref> [[http://www.uniprot.org/uniprot/LUC7_YEAST LUC7_YEAST]] Component of the~~ U1 snRNP ~~particle, which recognizes and binds the 5'~~-~~splice site of pre-mRNA~~. ~~Together with other non-snRNP factors,~~ U1 snRNP ~~forms the spliceosomal commitment complex, that targets pre-mRNA to the splicing pathway~~.<ref>PMID:~~10500099~~</ref> <ref>PMID:~~10533282~~</ref> [[http://www.uniprot.org/uniprot/RUXG_YEAST RUXG_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. [[http://www.uniprot.org/uniprot/SMD3_YEAST SMD3_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. Also binds telomerase RNA and is required for its accumulation.<ref>PMID:10490028</ref> <ref>PMID:~~7799953~~</ref> [[http://www.uniprot.org/uniprot/~~PRP42_YEAST PRP42_YEAST~~]] ~~Essential component~~ of the U1 snRNP particle, which recognizes and binds the 5'-splice site of pre-mRNA. Together with other non-snRNP factors, U1 snRNP forms the spliceosomal commitment complex, that targets pre-mRNA to the splicing pathway. ~~U1 snRNP is cotranscriptionally recruited to intron-containing genes. Required for U1 snRNP biogenesis.<ref>PMID:12897147</ref> <ref>PMID:9418882</ref>~~ [[http://www.uniprot.org/uniprot/~~RU17_YEAST RU17_YEAST]] Involved in nuclear mRNA splicing. [[http://www.uniprot.org/uniprot/SNU56_YEAST SNU56_YEAST~~]] Component of the U1 snRNP particle, which recognizes and binds the 5'-splice site of pre-mRNA. Together with other non-snRNP factors, U1 snRNP forms the spliceosomal commitment complex, that targets pre-mRNA to the splicing pathway. [[http://www.uniprot.org/uniprot/SMD2_YEAST SMD2_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. [[http://www.uniprot.org/uniprot/PRP28_YEAST PRP28_YEAST]] ATP-dependent RNA helicase involved in mRNA splicing. May destabilize the U1/5'-splice site duplex to permit an effective competition for the 5'-splice site by the U6 snRNA, resulting in the switch between U1 and U6 at the 5'-splice site. May also act to unwind the U4/U6 base-pairing interaction in the U4/U6/U5 snRNP, facilitating the first covalent step of splicing.<ref>PMID:10024879</ref> <ref>PMID:11172727</ref> <ref>PMID:2010088</ref> [[http://www.uniprot.org/uniprot/~~RUXE_YEAST RUXE_YEAST~~]] Involved in pre-mRNA splicing. Binds ~~and is required for the stability of~~ snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. ~~Involved in cap modification.<ref>PMID:8918241</ref>~~ [[http://www.uniprot.org/uniprot/~~RUXF_YEAST RUXF_YEAST~~]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. [[http://www.uniprot.org/uniprot/NAM8_YEAST NAM8_YEAST]] Acts as a suppressor of mitochondrial splicing deficiencies when overexpressed. Could be a non-essential component of the mitochondrial splicing machinery. [[http://www.uniprot.org/uniprot/RU1C_YEAST RU1C_YEAST]] Component of the spliceosomal U1 snRNP, which is essential for recognition of the pre-mRNA 5' splice-site and the subsequent assembly of the spliceosome. YHC1/U1-C is directly involved in initial 5' splice-site recognition for both constitutive and regulated alternative splicing. The interaction with the 5' splice-site seems to precede base-pairing between the pre-mRNA and the U1 snRNA. Stimulates commitment or early (E) complex formation by stabilizing the base pairing of the 5' end of the U1 snRNA and the 5' splice-site region.<ref>PMID:10072386</ref> <ref>PMID:12214237</ref> <ref>PMID:9233817</ref> [[http://www.uniprot.org/uniprot/RSMB_YEAST RSMB_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. [[http://www.uniprot.org/uniprot/RU1A_YEAST RU1A_YEAST]] Involved in nuclear mRNA splicing. The principal role of the U1A is to help fold or maintain U1 RNA in an active configuration. It is the first snRNP to interact with pre-mRNA. This interaction is required for the subsequent binding of U2 snRNP and the U4/U6/U5 tri-snRNP.<ref>PMID:8449403</ref> <ref>PMID:8849781</ref>	+	[[http://www.uniprot.org/uniprot/PRP42_YEAST PRP42_YEAST]] Essential component of the U1 snRNP particle, which recognizes and binds the 5'-splice site of pre-mRNA. Together with other non-snRNP factors, U1 snRNP forms the spliceosomal commitment complex, that targets pre-mRNA to the splicing pathway. U1 snRNP is cotranscriptionally recruited to intron-containing genes. Required for U1 snRNP biogenesis.<ref>PMID:12897147</ref> <ref>PMID:9418882</ref> [[http://www.uniprot.org/uniprot/SMD1_YEAST SMD1_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. Also binds telomerase RNA and is required for its accumulation.<ref>PMID:10490028</ref> <ref>PMID:8430095</ref> [[http://www.uniprot.org/uniprot/RU17_YEAST RU17_YEAST]] Involved in nuclear mRNA splicing. [[http://www.uniprot.org/uniprot/PRP39_YEAST PRP39_YEAST]] Function prior to stable branch point recognition by the U1 snRNP particle to facilitate or stabilize the U1 snRNP/5'-splice site interaction. Has a direct role in the assembly or function of a catalytically active spliceosome. [[http://www.uniprot.org/uniprot/SNU56_YEAST SNU56_YEAST]] Component of the U1 snRNP particle, which recognizes and binds the 5'-splice site of pre-mRNA. Together with other non-snRNP factors, U1 snRNP forms the spliceosomal commitment complex, that targets pre-mRNA to the splicing pathway. [[http://www.uniprot.org/uniprot/SNU71_YEAST SNU71_YEAST]] Component of the U1 snRNP particle, which recognizes and binds the 5'-splice site of pre-mRNA. Together with other non-snRNP factors, U1 snRNP forms the spliceosomal commitment complex, that targets pre-mRNA to the splicing pathway.<ref>PMID:11877437</ref> [[http://www.uniprot.org/uniprot/SMD2_YEAST SMD2_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. [[http://www.uniprot.org/uniprot/PRP28_YEAST PRP28_YEAST]] ATP-dependent RNA helicase involved in mRNA splicing. May destabilize the U1/5'-splice site duplex to permit an effective competition for the 5'-splice site by the U6 snRNA, resulting in the switch between U1 and U6 at the 5'-splice site. May also act to unwind the U4/U6 base-pairing interaction in the U4/U6/U5 snRNP, facilitating the first covalent step of splicing.<ref>PMID:10024879</ref> <ref>PMID:11172727</ref> <ref>PMID:2010088</ref> [[http://www.uniprot.org/uniprot/RUXF_YEAST RUXF_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. [[http://www.uniprot.org/uniprot/RUXE_YEAST RUXE_YEAST]] Involved in pre-mRNA splicing. Binds and is required for the stability of snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. Involved in cap modification.<ref>PMID:8918241</ref> [[http://www.uniprot.org/uniprot/NAM8_YEAST NAM8_YEAST]] Acts as a suppressor of mitochondrial splicing deficiencies when overexpressed. Could be a non-essential component of the mitochondrial splicing machinery. [[http://www.uniprot.org/uniprot/RU1C_YEAST RU1C_YEAST]] Component of the spliceosomal U1 snRNP, which is essential for recognition of the pre-mRNA 5' splice-site and the subsequent assembly of the spliceosome. YHC1/U1-C is directly involved in initial 5' splice-site recognition for both constitutive and regulated alternative splicing. The interaction with the 5' splice-site seems to precede base-pairing between the pre-mRNA and the U1 snRNA. Stimulates commitment or early (E) complex formation by stabilizing the base pairing of the 5' end of the U1 snRNA and the 5' splice-site region.<ref>PMID:10072386</ref> <ref>PMID:12214237</ref> <ref>PMID:9233817</ref> [[http://www.uniprot.org/uniprot/LUC7_YEAST LUC7_YEAST]] Component of the U1 snRNP particle, which recognizes and binds the 5'-splice site of pre-mRNA. Together with other non-snRNP factors, U1 snRNP forms the spliceosomal commitment complex, that targets pre-mRNA to the splicing pathway.<ref>PMID:10500099</ref> <ref>PMID:10533282</ref> [[http://www.uniprot.org/uniprot/RSMB_YEAST RSMB_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. [[http://www.uniprot.org/uniprot/SMD3_YEAST SMD3_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. Also binds telomerase RNA and is required for its accumulation.<ref>PMID:10490028</ref> <ref>PMID:7799953</ref> [[http://www.uniprot.org/uniprot/RUXG_YEAST RUXG_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. [[http://www.uniprot.org/uniprot/RU1A_YEAST RU1A_YEAST]] Involved in nuclear mRNA splicing. The principal role of the U1A is to help fold or maintain U1 RNA in an active configuration. It is the first snRNP to interact with pre-mRNA. This interaction is required for the subsequent binding of U2 snRNP and the U4/U6/U5 tri-snRNP.<ref>PMID:8449403</ref> <ref>PMID:8849781</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 23:
	<references/>		<references/>
	__TOC__		__TOC__
-	</~~StructureSection~~>	+	</SX>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: RNA helicase]]		[[Category: RNA helicase]]

OCA at 07:34, 6 November 2019

OCA — Wed, 06 Nov 2019 07:34:57 GMT

←Older revision		Revision as of 07:34, 6 November 2019
Line 1:		Line 1:

	==Cryo-EM structure of the yeast pre-B complex at an average resolution of 3.3 angstrom (Part II: U1 snRNP region)==		==Cryo-EM structure of the yeast pre-B complex at an average resolution of 3.3 angstrom (Part II: U1 snRNP region)==
-	<StructureSection load='5zwn' size='340' side='right' caption='[[5zwn]], [[Resolution\|resolution]] 3.30Å' scene=''>	+	<StructureSection load='5zwn' size='340' side='right'caption='[[5zwn]], [[Resolution\|resolution]] 3.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5zwn]] is a 20 chain structure with sequence from [http://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=5ZWN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZWN FirstGlance]. <br>		<table><tr><td colspan='2'>[[5zwn]] is a 20 chain structure with sequence from [http://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=5ZWN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZWN FirstGlance]. <br>
Line 24:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: RNA helicase]]		[[Category: RNA helicase]]
	[[Category: Saccharomyces cerevisiae s288c]]		[[Category: Saccharomyces cerevisiae s288c]]

OCA at 07:22, 29 August 2018

OCA — Wed, 29 Aug 2018 07:22:22 GMT

←Older revision		Revision as of 07:22, 29 August 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5zwn is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Cryo-EM structure of the yeast pre-B complex at an average resolution of 3.3 angstrom (Part II: U1 snRNP region)==
		+	<StructureSection load='5zwn' size='340' side='right' caption='[[5zwn]], [[Resolution\|resolution]] 3.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5zwn]] is a 20 chain structure with sequence from [http://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=5ZWN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZWN FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5zwm\|5zwm]]</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=5zwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zwn OCA], [http://pdbe.org/5zwn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zwn RCSB], [http://www.ebi.ac.uk/pdbsum/5zwn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zwn ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SMD1_YEAST SMD1_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. Also binds telomerase RNA and is required for its accumulation.<ref>PMID:10490028</ref> <ref>PMID:8430095</ref> [[http://www.uniprot.org/uniprot/PRP39_YEAST PRP39_YEAST]] Function prior to stable branch point recognition by the U1 snRNP particle to facilitate or stabilize the U1 snRNP/5'-splice site interaction. Has a direct role in the assembly or function of a catalytically active spliceosome. [[http://www.uniprot.org/uniprot/SNU71_YEAST SNU71_YEAST]] Component of the U1 snRNP particle, which recognizes and binds the 5'-splice site of pre-mRNA. Together with other non-snRNP factors, U1 snRNP forms the spliceosomal commitment complex, that targets pre-mRNA to the splicing pathway.<ref>PMID:11877437</ref> [[http://www.uniprot.org/uniprot/LUC7_YEAST LUC7_YEAST]] Component of the U1 snRNP particle, which recognizes and binds the 5'-splice site of pre-mRNA. Together with other non-snRNP factors, U1 snRNP forms the spliceosomal commitment complex, that targets pre-mRNA to the splicing pathway.<ref>PMID:10500099</ref> <ref>PMID:10533282</ref> [[http://www.uniprot.org/uniprot/RUXG_YEAST RUXG_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. [[http://www.uniprot.org/uniprot/SMD3_YEAST SMD3_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. Also binds telomerase RNA and is required for its accumulation.<ref>PMID:10490028</ref> <ref>PMID:7799953</ref> [[http://www.uniprot.org/uniprot/PRP42_YEAST PRP42_YEAST]] Essential component of the U1 snRNP particle, which recognizes and binds the 5'-splice site of pre-mRNA. Together with other non-snRNP factors, U1 snRNP forms the spliceosomal commitment complex, that targets pre-mRNA to the splicing pathway. U1 snRNP is cotranscriptionally recruited to intron-containing genes. Required for U1 snRNP biogenesis.<ref>PMID:12897147</ref> <ref>PMID:9418882</ref> [[http://www.uniprot.org/uniprot/RU17_YEAST RU17_YEAST]] Involved in nuclear mRNA splicing. [[http://www.uniprot.org/uniprot/SNU56_YEAST SNU56_YEAST]] Component of the U1 snRNP particle, which recognizes and binds the 5'-splice site of pre-mRNA. Together with other non-snRNP factors, U1 snRNP forms the spliceosomal commitment complex, that targets pre-mRNA to the splicing pathway. [[http://www.uniprot.org/uniprot/SMD2_YEAST SMD2_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. [[http://www.uniprot.org/uniprot/PRP28_YEAST PRP28_YEAST]] ATP-dependent RNA helicase involved in mRNA splicing. May destabilize the U1/5'-splice site duplex to permit an effective competition for the 5'-splice site by the U6 snRNA, resulting in the switch between U1 and U6 at the 5'-splice site. May also act to unwind the U4/U6 base-pairing interaction in the U4/U6/U5 snRNP, facilitating the first covalent step of splicing.<ref>PMID:10024879</ref> <ref>PMID:11172727</ref> <ref>PMID:2010088</ref> [[http://www.uniprot.org/uniprot/RUXE_YEAST RUXE_YEAST]] Involved in pre-mRNA splicing. Binds and is required for the stability of snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. Involved in cap modification.<ref>PMID:8918241</ref> [[http://www.uniprot.org/uniprot/RUXF_YEAST RUXF_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. [[http://www.uniprot.org/uniprot/NAM8_YEAST NAM8_YEAST]] Acts as a suppressor of mitochondrial splicing deficiencies when overexpressed. Could be a non-essential component of the mitochondrial splicing machinery. [[http://www.uniprot.org/uniprot/RU1C_YEAST RU1C_YEAST]] Component of the spliceosomal U1 snRNP, which is essential for recognition of the pre-mRNA 5' splice-site and the subsequent assembly of the spliceosome. YHC1/U1-C is directly involved in initial 5' splice-site recognition for both constitutive and regulated alternative splicing. The interaction with the 5' splice-site seems to precede base-pairing between the pre-mRNA and the U1 snRNA. Stimulates commitment or early (E) complex formation by stabilizing the base pairing of the 5' end of the U1 snRNA and the 5' splice-site region.<ref>PMID:10072386</ref> <ref>PMID:12214237</ref> <ref>PMID:9233817</ref> [[http://www.uniprot.org/uniprot/RSMB_YEAST RSMB_YEAST]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. [[http://www.uniprot.org/uniprot/RU1A_YEAST RU1A_YEAST]] Involved in nuclear mRNA splicing. The principal role of the U1A is to help fold or maintain U1 RNA in an active configuration. It is the first snRNP to interact with pre-mRNA. This interaction is required for the subsequent binding of U2 snRNP and the U4/U6/U5 tri-snRNP.<ref>PMID:8449403</ref> <ref>PMID:8849781</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The precatalytic spliceosome (B complex) is preceded by the pre-B complex. Here we report the cryo-electron microscopy structures of the Saccharomyces cerevisiae pre-B and B complexes at average resolutions of 3.3 to 4.6 and 3.9 angstroms, respectively. In the pre-B complex, the duplex between the 5' splice site (5'SS) and U1 small nuclear RNA (snRNA) is recognized by Yhc1, Luc7, and the Sm ring. In the B complex, U1 small nuclear ribonucleoprotein is dissociated, the 5'-exon-5'SS sequences are translocated near U6 snRNA, and three B-specific proteins may orient the precursor messenger RNA. In both complexes, U6 snRNA is anchored to loop I of U5 snRNA, and the duplex between the branch point sequence and U2 snRNA is recognized by the SF3b complex. Structural analysis reveals the mechanism of assembly and activation for the yeast spliceosome.

-	~~Authors~~:	+	Structures of the fully assembled Saccharomyces cerevisiae spliceosome before activation.,Bai R, Wan R, Yan C, Lei J, Shi Y Science. 2018 Jun 29;360(6396):1423-1429. doi: 10.1126/science.aau0325. Epub 2018, May 24. PMID:29794219<ref>PMID:29794219</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5zwn" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: RNA helicase]]
		+	[[Category: Saccharomyces cerevisiae s288c]]
		+	[[Category: Bai, R]]
		+	[[Category: Lei, J]]
		+	[[Category: Shi, Y]]
		+	[[Category: Wan, R]]
		+	[[Category: Yan, C]]
		+	[[Category: Assemply]]
		+	[[Category: Pre-b complex]]
		+	[[Category: Spliceosme]]
		+	[[Category: Splicing]]
		+	[[Category: U1 snrnp]]

OCA at 04:32, 22 August 2018

OCA — Wed, 22 Aug 2018 04:32:29 GMT

←Older revision		Revision as of 04:32, 22 August 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

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

OCA — Wed, 23 May 2018 05:53:19 GMT

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

←Older revision

Revision as of 05:53, 23 May 2018

OCA: New page: '''Unreleased structure''' The entry 5zwn is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 23 May 2018 05:53:18 GMT

New page: '''Unreleased structure''' The entry 5zwn is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5zwn is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]