4v5u - Revision history

OCA: Redirecting to 4wzj

OCA — Wed, 21 Jan 2015 16:44:29 GMT

Redirecting to 4wzj

←Older revision		Revision as of 16:44, 21 January 2015
Line 1:		Line 1:
-	~~==Structure of the spliceosomal U4 snRNP core domain==~~	+	#REDIRECT [[4wzj]] This PDB entry is obsolete and replaced by 4wzj
-	~~<StructureSection load='4v5u' size='340' side='right' caption='~~[[~~4v5u~~]]~~, [[Resolution\|resolution]] 3.60Å' scene=''>~~	+
-	~~== Structural highlights ==~~	+
-	~~<table><tr><td colspan='2'>[[4v5u]] is a 96 chain structure.~~ This ~~structure supersedes the now removed~~ PDB ~~entries and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2y9d 2y9d]. Full crystallographic information~~ is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4V5U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4V5U FirstGlance]. <br>	+
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2y9a\|2y9a]], [[2y9b\|2y9b]], [[2y9c\|2y9c]], [[2y9d\|2y9d]], [[1d3b\|1d3b]], [[1b34\|1b34]], [[3cw1\|3cw1]], [[3pgw\|3pgw]]</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=4v5u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4v5u OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4v5u RCSB], [http://www.ebi.ac.uk/pdbsum/4v5u PDBsum]</span></td></tr>	+
-	~~</table>~~	+
-	~~== Function ==~~	+
-	~~[[http://www.uniprot.org/uniprot/RUXF_HUMAN RUXF_HUMAN]] Appears to function in the U7 snRNP complex that is involved in histone 3'-end processing. Associated with snRNP U1, U2, U4/U6~~ and U5. [[http://www.uniprot.org/uniprot/SMD2_HUMAN SMD2_HUMAN]] Required for pre-mRNA splicing. Required for snRNP biogenesis (By similarity). [[http://www.uniprot.org/uniprot/RUXG_HUMAN RUXG_HUMAN]] Appears to function in the U7 snRNP complex that is involved in histone 3'-end processing. Associated with snRNP U1, U2, U4/U6 and U5. [[http://www.uniprot.org/uniprot/SMD1_HUMAN SMD1_HUMAN]] May act as a charged protein scaffold to promote snRNP assembly or strengthen snRNP-snRNP interactions through nonspecific electrostatic contacts with RNA. [[http://www.uniprot.org/uniprot/RSMB_HUMAN RSMB_HUMAN]] Appears to function in the U7 snRNP complex that is involved in histone 3'-end processing. Associated with snRNP U1, U2, U4/U6 and U5. May have a functional role in the pre-mRNA splicing or in snRNP structure. Binds to the downstream cleavage product (DCP) of histone pre-mRNA in a U7 snRNP dependent manner (By similarity). [[http://www.uniprot.org/uniprot/SMD3_HUMAN SMD3_HUMAN]] Appears to function in the U7 snRNP complex that is involved in histone 3'-end processing. Binds to the downstream cleavage product (DCP) of histone pre-mRNA in a U7 snRNP dependent manner.<ref>PMID:11574479</ref> [[http://www.uniprot.org/uniprot/RUXE_HUMAN RUXE_HUMAN]] Appears to function in the U7 snRNP complex that is involved in histone 3'-end processing. Associated with snRNP U1, U2, U4/U6 and U5.	+
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	The spliceosome is a dynamic macromolecular machine that assembles on pre-messenger RNA substrates and catalyses the excision of non-coding intervening sequences (introns). Four of the five major components of the spliceosome, U1, U2, U4 and U5 small nuclear ribonucleoproteins (snRNPs), contain seven Sm proteins (SmB/B', SmD1, SmD2, SmD3, SmE, SmF and SmG) in common. Following export of the U1, U2, U4 and U5 snRNAs to the cytoplasm, the seven Sm proteins, chaperoned by the survival of motor neurons (SMN) complex, assemble around a single-stranded, U-rich sequence called the Sm site in each small nuclear RNA (snRNA), to form the core domain of the respective snRNP particle. Core domain formation is a prerequisite for re-import into the nucleus, where these snRNPs mature via addition of their particle-specific proteins. Here we present a crystal structure of the U4 snRNP core domain at 3.6 A resolution, detailing how the Sm site heptad (AUUUUUG) binds inside the central hole of the heptameric ring of Sm proteins, interacting one-to-one with SmE-SmG-SmD3-SmB-SmD1-SmD2-SmF. An irregular backbone conformation of the Sm site sequence combined with the asymmetric structure of the heteromeric protein ring allows each base to interact in a distinct manner with four key residues at equivalent positions in the L3 and L5 loops of the Sm fold. A comparison of this structure with the U1 snRNP at 5.5 A resolution reveals snRNA-dependent structural changes outside the Sm fold, which may facilitate the binding of particle-specific proteins that are crucial to biogenesis of spliceosomal snRNPs.	+
-		+
-	~~Structure of the spliceosomal U4 snRNP core domain and its implication for snRNP biogenesis.,Leung AK, Nagai K, Li J Nature. 2011 Apr 24. PMID:21516107<ref>PMID:21516107</ref>~~	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~== References ==~~	+
-	~~<references/>~~	+
-	~~__TOC__~~	+
-	~~</StructureSection>~~	+
-	~~[[Category: Leung, A K.W]]~~	+
-	~~[[Category: Li, J]]~~	+
-	~~[[Category: Nagai, K]]~~	+
-	~~[[Category: Heteromeric heptameric ring]]~~	+
-	~~[[Category: Pre-mrna splicing]]~~	+
-	~~[[Category: Rna binding]]~~	+
-	~~[[Category: Sm fold]]~~	+
-	~~[[Category: Sm site]]~~	+
-	~~[[Category: Snrnp biogenesis]]~~	+
-	~~[[Category: Spliceosome]]~~	+
-	~~[[Category: Splicing-rna complex]]~~	+

OCA: Protected "4v5u" [edit=sysop:move=sysop]

OCA — Thu, 25 Dec 2014 22:43:13 GMT

Protected "4v5u" [edit=sysop:move=sysop]

←Older revision

Revision as of 22:43, 25 December 2014

OCA: New page: ==Structure of the spliceosomal U4 snRNP core domain== == Structur...

OCA — Thu, 25 Dec 2014 22:43:11 GMT

New page: ==Structure of the spliceosomal U4 snRNP core domain== <StructureSection load='4v5u' size='340' side='right' caption='4v5u, resolution 3.60Å' scene=''> == Structur...

New page

==Structure of the spliceosomal U4 snRNP core domain==
<StructureSection load='4v5u' size='340' side='right' caption='[[4v5u]], [[Resolution|resolution]] 3.60Å' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[4v5u]] is a 96 chain structure. This structure supersedes the now removed PDB entries and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2y9d 2y9d]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4V5U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4V5U FirstGlance]. <br>
</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2y9a|2y9a]], [[2y9b|2y9b]], [[2y9c|2y9c]], [[2y9d|2y9d]], [[1d3b|1d3b]], [[1b34|1b34]], [[3cw1|3cw1]], [[3pgw|3pgw]]</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=4v5u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4v5u OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4v5u RCSB], [http://www.ebi.ac.uk/pdbsum/4v5u PDBsum]</span></td></tr>
</table>
== Function ==
[[http://www.uniprot.org/uniprot/RUXF_HUMAN RUXF_HUMAN]] Appears to function in the U7 snRNP complex that is involved in histone 3'-end processing. Associated with snRNP U1, U2, U4/U6 and U5. [[http://www.uniprot.org/uniprot/SMD2_HUMAN SMD2_HUMAN]] Required for pre-mRNA splicing. Required for snRNP biogenesis (By similarity). [[http://www.uniprot.org/uniprot/RUXG_HUMAN RUXG_HUMAN]] Appears to function in the U7 snRNP complex that is involved in histone 3'-end processing. Associated with snRNP U1, U2, U4/U6 and U5. [[http://www.uniprot.org/uniprot/SMD1_HUMAN SMD1_HUMAN]] May act as a charged protein scaffold to promote snRNP assembly or strengthen snRNP-snRNP interactions through nonspecific electrostatic contacts with RNA. [[http://www.uniprot.org/uniprot/RSMB_HUMAN RSMB_HUMAN]] Appears to function in the U7 snRNP complex that is involved in histone 3'-end processing. Associated with snRNP U1, U2, U4/U6 and U5. May have a functional role in the pre-mRNA splicing or in snRNP structure. Binds to the downstream cleavage product (DCP) of histone pre-mRNA in a U7 snRNP dependent manner (By similarity). [[http://www.uniprot.org/uniprot/SMD3_HUMAN SMD3_HUMAN]] Appears to function in the U7 snRNP complex that is involved in histone 3'-end processing. Binds to the downstream cleavage product (DCP) of histone pre-mRNA in a U7 snRNP dependent manner.<ref>PMID:11574479</ref> [[http://www.uniprot.org/uniprot/RUXE_HUMAN RUXE_HUMAN]] Appears to function in the U7 snRNP complex that is involved in histone 3'-end processing. Associated with snRNP U1, U2, U4/U6 and U5.
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The spliceosome is a dynamic macromolecular machine that assembles on pre-messenger RNA substrates and catalyses the excision of non-coding intervening sequences (introns). Four of the five major components of the spliceosome, U1, U2, U4 and U5 small nuclear ribonucleoproteins (snRNPs), contain seven Sm proteins (SmB/B', SmD1, SmD2, SmD3, SmE, SmF and SmG) in common. Following export of the U1, U2, U4 and U5 snRNAs to the cytoplasm, the seven Sm proteins, chaperoned by the survival of motor neurons (SMN) complex, assemble around a single-stranded, U-rich sequence called the Sm site in each small nuclear RNA (snRNA), to form the core domain of the respective snRNP particle. Core domain formation is a prerequisite for re-import into the nucleus, where these snRNPs mature via addition of their particle-specific proteins. Here we present a crystal structure of the U4 snRNP core domain at 3.6 A resolution, detailing how the Sm site heptad (AUUUUUG) binds inside the central hole of the heptameric ring of Sm proteins, interacting one-to-one with SmE-SmG-SmD3-SmB-SmD1-SmD2-SmF. An irregular backbone conformation of the Sm site sequence combined with the asymmetric structure of the heteromeric protein ring allows each base to interact in a distinct manner with four key residues at equivalent positions in the L3 and L5 loops of the Sm fold. A comparison of this structure with the U1 snRNP at 5.5 A resolution reveals snRNA-dependent structural changes outside the Sm fold, which may facilitate the binding of particle-specific proteins that are crucial to biogenesis of spliceosomal snRNPs.

Structure of the spliceosomal U4 snRNP core domain and its implication for snRNP biogenesis.,Leung AK, Nagai K, Li J Nature. 2011 Apr 24. PMID:21516107<ref>PMID:21516107</ref>

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
</div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Leung, A K.W]]
[[Category: Li, J]]
[[Category: Nagai, K]]
[[Category: Heteromeric heptameric ring]]
[[Category: Pre-mrna splicing]]
[[Category: Rna binding]]
[[Category: Sm fold]]
[[Category: Sm site]]
[[Category: Snrnp biogenesis]]
[[Category: Spliceosome]]
[[Category: Splicing-rna complex]]