7bb3 - Revision history

OCA at 12:25, 1 February 2024

2024-02-01T12:25:08Z

←Older revision		Revision as of 12:25, 1 February 2024
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	<StructureSection load='7bb3' size='340' side='right'caption='[[7bb3]], [[Resolution\|resolution]] 2.16Å' scene=''>		<StructureSection load='7bb3' size='340' side='right'caption='[[7bb3]], [[Resolution\|resolution]] 2.16Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7bb3]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Fission_yeast Fission yeast~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BB3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BB3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7bb3]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Schizosaccharomyces_pombe_972h- Schizosaccharomyces pombe 972h-]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BB3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BB3 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=MPD:(4S)~~-2~~-METHYL-2,4-PENTANEDIOL'>MPD</scene>~~</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]] 2.158Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~smn1, yab8, SPAC2G11.08c ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=284812 Fission yeast]~~)</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></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=7bb3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bb3 OCA], [https://pdbe.org/7bb3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bb3 RCSB], [https://www.ebi.ac.uk/pdbsum/7bb3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bb3 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=7bb3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bb3 OCA], [https://pdbe.org/7bb3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bb3 RCSB], [https://www.ebi.ac.uk/pdbsum/7bb3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bb3 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/~~SMN1_SCHPO SMN1_SCHPO~~]~~] Has been implicated indirectly~~ in ~~general~~ cellular ~~RNA processing~~. ~~Plays~~ a ~~crucial role~~ in the ~~generation~~ of the ~~pre-mRNA splicing machinery~~ and in ~~mRNA biogenesis~~ by ~~interacting with spliceosomal~~ snRNPs.	+	[https://www.uniprot.org/uniprot/SMN_SCHPO SMN_SCHPO] The SMN complex catalyzes the assembly of small nuclear ribonucleoproteins (snRNPs), the building blocks of the spliceosome, and thereby plays an important role in the splicing of cellular pre-mRNAs (PubMed:20400941, PubMed:33754639, PubMed:10749974). Most spliceosomal snRNPs contain a common set of Sm proteins smb1, smd1, smd2, smd3, sme1, smf1 and smg1 that assemble in a heptameric protein ring on the Sm site of the small nuclear RNA to form the core snRNP (Sm core) (By similarity). In the cytosol, the Sm proteins smd1, smd2, sme1, smf1 and smg1 (5Sm) are trapped in an inactive 6S pICln-Sm complex by the chaperone saf5 that controls the assembly of the core snRNP (By similarity). To assemble core snRNPs, the SMN complex accepts the trapped 5Sm proteins from saf5 forming an intermediate (By similarity). Binding of snRNA inside 5Sm triggers eviction of the SMN complex, thereby allowing binding of smd3 and smb1 to complete assembly of the core snRNP (By similarity). Within the SMN complex, smn1 acts as a structural backbone and together with yip11/gem2 it gathers the Sm complex subunits (PubMed:33754639).[UniProtKB:Q16637]<ref>PMID:10749974</ref> <ref>PMID:20400941</ref> <ref>PMID:33754639</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Fission yeast]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Fischer, U~~]]	+	[[Category: Schizosaccharomyces pombe 972h-]]
-	[[Category: ~~Grimm, C~~]]	+	[[Category: Fischer U]]
-	[[Category: ~~Veepaschit, J~~]]	+	[[Category: Grimm C]]
-	[[Category: ~~Biogenesis]]~~	+	[[Category: Veepaschit J]]
-	~~[[Category: Oligomerization]]~~	+
-	~~[[Category: Smn]]~~	+
-	~~[[Category: Splicing]]~~	+
-	~~[[Category: Usnrnp~~]]	+

OCA at 10:46, 28 July 2021

2021-07-28T10:46:26Z

←Older revision		Revision as of 10:46, 28 July 2021
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	==Structure of S. pombe YG-box oligomer==		==Structure of S. pombe YG-box oligomer==
-	<StructureSection load='7bb3' size='340' side='right'caption='[[7bb3]]' scene=''>	+	<StructureSection load='7bb3' size='340' side='right'caption='[[7bb3]], [[Resolution\|resolution]] 2.16Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BB3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BB3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7bb3]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Fission_yeast Fission yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BB3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BB3 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=7bb3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bb3 OCA], [https://pdbe.org/7bb3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bb3 RCSB], [https://www.ebi.ac.uk/pdbsum/7bb3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bb3 ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">smn1, yab8, SPAC2G11.08c ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=284812 Fission yeast])</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=7bb3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bb3 OCA], [https://pdbe.org/7bb3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bb3 RCSB], [https://www.ebi.ac.uk/pdbsum/7bb3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bb3 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[https://www.uniprot.org/uniprot/SMN1_SCHPO SMN1_SCHPO]] Has been implicated indirectly in general cellular RNA processing. Plays a crucial role in the generation of the pre-mRNA splicing machinery and in mRNA biogenesis by interacting with spliceosomal snRNPs.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The macromolecular SMN complex facilitates the formation of Sm-class ribonucleoproteins involved in mRNA processing (UsnRNPs). While biochemical studies have revealed key activities of the SMN complex, its structural investigation is lagging behind. Here we report on the identification and structural determination of the SMN complex from the lower eukaryote Schizosaccharomyces pombe, consisting of SMN, Gemin2, 6, 7, 8 and Sm proteins. The core of the SMN complex is formed by several copies of SMN tethered through its C-terminal alpha-helices arranged with alternating polarity. This creates a central platform onto which Gemin8 binds and recruits Gemins 6 and 7. The N-terminal parts of the SMN molecules extrude via flexible linkers from the core and enable binding of Gemin2 and Sm proteins. Our data identify the SMN complex as a multivalent hub where Sm proteins are collected in its periphery to allow their joining with UsnRNA.
		+
		+	Identification and structural analysis of the Schizosaccharomyces pombe SMN complex.,Veepaschit J, Viswanathan A, Bordonne R, Grimm C, Fischer U Nucleic Acids Res. 2021 Jul 21;49(13):7207-7223. doi: 10.1093/nar/gkab158. PMID:33754639<ref>PMID:33754639</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7bb3" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Fission yeast]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Fischer U]]	+	[[Category: Fischer, U]]
-	[[Category: Grimm C]]	+	[[Category: Grimm, C]]
-	[[Category: Veepaschit J]]	+	[[Category: Veepaschit, J]]
		+	[[Category: Biogenesis]]
		+	[[Category: Oligomerization]]
		+	[[Category: Smn]]
		+	[[Category: Splicing]]
		+	[[Category: Usnrnp]]

OCA at 10:46, 31 March 2021

2021-03-31T10:46:39Z

←Older revision		Revision as of 10:46, 31 March 2021
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	<StructureSection load='7bb3' size='340' side='right'caption='[[7bb3]]' scene=''>		<StructureSection load='7bb3' size='340' side='right'caption='[[7bb3]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BB3 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=7BB3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BB3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BB3 FirstGlance]. <br>
-	</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=7bb3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bb3 OCA], [~~http~~://pdbe.org/7bb3 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=7bb3 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/7bb3 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=7bb3 ProSAT]</span></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=7bb3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bb3 OCA], [https://pdbe.org/7bb3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bb3 RCSB], [https://www.ebi.ac.uk/pdbsum/7bb3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bb3 ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__

OCA at 08:13, 20 January 2021

2021-01-20T08:13:22Z

←Older revision		Revision as of 08:13, 20 January 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 7bb3 is ~~ON HOLD~~	+	==Structure of S. pombe YG-box oligomer==
-		+	<StructureSection load='7bb3' size='340' side='right'caption='[[7bb3]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BB3 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=7BB3 FirstGlance]. <br>
-	~~Description~~:	+	</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=7bb3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bb3 OCA], [http://pdbe.org/7bb3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=7bb3 RCSB], [http://www.ebi.ac.uk/pdbsum/7bb3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=7bb3 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Fischer U]]
		+	[[Category: Grimm C]]
		+	[[Category: Veepaschit J]]

OCA: Protected "7bb3" [edit=sysop:move=sysop]

2020-12-24T07:48:32Z

Protected "7bb3" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:48, 24 December 2020

OCA: New page: '''Unreleased structure''' The entry 7bb3 is ON HOLD Authors: Description: Category: Unreleased Structures

2020-12-24T07:48:30Z

New page: '''Unreleased structure''' The entry 7bb3 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7bb3 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]