3kik - Revision history

OCA at 08:16, 6 September 2023

2023-09-06T08:16:51Z

←Older revision		Revision as of 08:16, 6 September 2023
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	==Sgf11:Sus1 complex==		==Sgf11:Sus1 complex==
-	<StructureSection load='3kik' size='340' side='right' caption='[[3kik]], [[Resolution\|resolution]] 2.10Å' scene=''>	+	<StructureSection load='3kik' size='340' side='right'caption='[[3kik]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3kik]] is a 8 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=3KIK OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3KIK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3kik]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KIK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3KIK FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[3kjl\|3kjl]]</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]] 2.1Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">SUS1, YBR111W-A ([http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=4932 ATCC 18824]), SGF11, YPL047W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824])~~</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=3kik FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kik OCA], [https://pdbe.org/3kik PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3kik RCSB], [https://www.ebi.ac.uk/pdbsum/3kik PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3kik ProSAT]</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=3kik FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kik OCA], [~~http~~://pdbe.org/3kik PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3kik RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3kik PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3kik ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/SUS1_YEAST SUS1_YEAST]] Involved in mRNA export coupled transcription activation by association with both the TREX-2 and the SAGA complexes. The transcription regulatory histone acetylation (HAT) complex SAGA is involved in RNA polymerase II-dependent regulation of approximately 10% of yeast genes. At the promoters, SAGA is required for recruitment of the basal transcription machinery. It influences RNA polymerase II transcriptional activity through different activities such as TBP interaction (SPT3, SPT8 and SPT20) and promoter selectivity, interaction with transcription activators (GCN5, ADA2, ADA3 and TRA1), and chromatin modification through histone acetylation (GCN5) and deubiquitination (UBP8). SUS1 forms a distinct functional SAGA module with UBP8, SGF11 and SGF73 required for deubiquitination of H2B and for the maintenance of steady-state H3 methylation levels. The TREX-2 complex functions in docking export-competent ribonucleoprotein particles (mRNPs) to the nuclear entrance of the nuclear pore complex (nuclear basket), by association with components of the nuclear mRNA export machinery (MEX67-MTR2 and SUB2) in the nucleoplasm and the nucleoporin NUP1 at the nuclear basket. TREX-2 participates in mRNA export and accurate chromatin positioning in the nucleus by tethering genes to the nuclear periphery. SUS1 has also a role in mRNP biogenesis and maintenance of genome integrity through preventing RNA-mediated genome instability. Finally SUS1 has a role in response to DNA damage induced by methyl methane sulfonate (MMS) and replication arrest induced by hydroxyurea.<ref>PMID:15311284</ref> <ref>PMID:16510898</ref> <ref>PMID:16855026</ref> <ref>PMID:16760982</ref> <ref>PMID:18923079</ref> <ref>PMID:18667528</ref> <ref>PMID:18003937</ref> [[http://www.uniprot.org/uniprot/SGF11_YEAST SGF11_YEAST]] Component of the transcription regulatory histone acetylation (HAT) complex SAGA. SAGA is involved in RNA polymerase II-dependent transcriptional regulation of approximately 10% of yeast genes. At the promoters, SAGA is required for recruitment of the basal transcription machinery. It influences RNA polymerase II transcriptional activity through different activities such as TBP interaction (SPT3, SPT8 and SPT20) and promoter selectivity, interaction with transcription activators (GCN5, ADA2, ADA3 and TRA1), and chromatin modification through histone acetylation (GCN5) and deubiquitination (UBP8). SAGA acetylates nucleosomal histone H3 to some extent (to form H3K9ac, H3K14ac, H3K18ac and H3K23ac). SAGA interacts with DNA via upstream activating sequences (UASs). SGF11 is involved in transcriptional regulation of a subset of SAGA-regulated genes. Within the SAGA complex, participates in a subcomplex with SUS1, SGF73 and UBP8 required for deubiquitination of H2B and for the maintenance of steady-state H3 methylation levels. It is required to recruit UBP8 and SUS1 into the SAGA complex.<ref>PMID:15657441</ref> <ref>PMID:15657442</ref>	+	[https://www.uniprot.org/uniprot/SGF11_YEAST SGF11_YEAST] Component of the transcription regulatory histone acetylation (HAT) complex SAGA. SAGA is involved in RNA polymerase II-dependent transcriptional regulation of approximately 10% of yeast genes. At the promoters, SAGA is required for recruitment of the basal transcription machinery. It influences RNA polymerase II transcriptional activity through different activities such as TBP interaction (SPT3, SPT8 and SPT20) and promoter selectivity, interaction with transcription activators (GCN5, ADA2, ADA3 and TRA1), and chromatin modification through histone acetylation (GCN5) and deubiquitination (UBP8). SAGA acetylates nucleosomal histone H3 to some extent (to form H3K9ac, H3K14ac, H3K18ac and H3K23ac). SAGA interacts with DNA via upstream activating sequences (UASs). SGF11 is involved in transcriptional regulation of a subset of SAGA-regulated genes. Within the SAGA complex, participates in a subcomplex with SUS1, SGF73 and UBP8 required for deubiquitination of H2B and for the maintenance of steady-state H3 methylation levels. It is required to recruit UBP8 and SUS1 into the SAGA complex.<ref>PMID:15657441</ref> <ref>PMID:15657442</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Atcc 18824~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Ellisdon, A M~~]]	+	[[Category: Saccharomyces cerevisiae]]
-	[[Category: ~~Stewart, M~~]]	+	[[Category: Ellisdon AM]]
-	[[Category: ~~Activator]]~~	+	[[Category: Stewart M]]
-	~~[[Category: Articulated hirpin fold]]~~	+
-	~~[[Category: Chromatin regulator]]~~	+
-	~~[[Category: Metal-binding]]~~	+
-	~~[[Category: Mrna transport]]~~	+
-	~~[[Category: Nuclear pore complex]]~~	+
-	~~[[Category: Nucleus]]~~	+
-	~~[[Category: Protein transport]]~~	+
-	~~[[Category: Saga complex]]~~	+
-	~~[[Category: Transcription]]~~	+
-	~~[[Category: Transcription regulation]]~~	+
-	~~[[Category: Translocation]]~~	+
-	~~[[Category: Transport]]~~	+
-	~~[[Category: Zinc]]~~	+
-	~~[[Category: Zinc-finger~~]]	+

OCA at 09:13, 26 December 2018

2018-12-26T09:13:18Z

←Older revision		Revision as of 09:13, 26 December 2018
Line 1:		Line 1:
		+
	==Sgf11:Sus1 complex==		==Sgf11:Sus1 complex==
	<StructureSection load='3kik' size='340' side='right' caption='[[3kik]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='3kik' size='340' side='right' caption='[[3kik]], [[Resolution\|resolution]] 2.10Å' scene=''>
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	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3kjl\|3kjl]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3kjl\|3kjl]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SUS1, YBR111W-A ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824]), SGF11, YPL047W ([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">SUS1, YBR111W-A ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824]), SGF11, YPL047W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824])</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=3kik FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kik OCA], [http://pdbe.org/3kik PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3kik RCSB], [http://www.ebi.ac.uk/pdbsum/3kik 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=3kik FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kik OCA], [http://pdbe.org/3kik PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3kik RCSB], [http://www.ebi.ac.uk/pdbsum/3kik PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3kik ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ki/3kik_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ki/3kik_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 51:		Line 52:
	[[Category: Translocation]]		[[Category: Translocation]]
	[[Category: Transport]]		[[Category: Transport]]
		+	[[Category: Zinc]]
	[[Category: Zinc-finger]]		[[Category: Zinc-finger]]

OCA at 18:43, 9 February 2016

2016-02-09T18:43:26Z

←Older revision		Revision as of 18:43, 9 February 2016
Line 2:		Line 2:
	<StructureSection load='3kik' size='340' side='right' caption='[[3kik]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='3kik' size='340' side='right' caption='[[3kik]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3kik]] is a 8 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=3KIK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3KIK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3kik]] is a 8 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=3KIK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3KIK FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3kjl\|3kjl]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3kjl\|3kjl]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SUS1, YBR111W-A ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ~~Saccharomyces cerevisiae~~]), SGF11, YPL047W ([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">SUS1, YBR111W-A ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824]), SGF11, YPL047W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824])</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=3kik FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kik OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3kik RCSB], [http://www.ebi.ac.uk/pdbsum/3kik 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=3kik FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kik OCA], [http://pdbe.org/3kik PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3kik RCSB], [http://www.ebi.ac.uk/pdbsum/3kik PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 17:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3kik ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 27:		Line 27:
	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 3kik" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Saccharomyces cerevisiae~~]]	+	[[Category: Atcc 18824]]
	[[Category: Ellisdon, A M]]		[[Category: Ellisdon, A M]]
	[[Category: Stewart, M]]		[[Category: Stewart, M]]

OCA at 08:46, 25 December 2014

2014-12-25T08:46:08Z

←Older revision		Revision as of 08:46, 25 December 2014
Line 7:		Line 7:
	<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=3kik FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kik OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3kik RCSB], [http://www.ebi.ac.uk/pdbsum/3kik 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=3kik FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kik OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3kik RCSB], [http://www.ebi.ac.uk/pdbsum/3kik PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SUS1_YEAST SUS1_YEAST]] Involved in mRNA export coupled transcription activation by association with both the TREX-2 and the SAGA complexes. The transcription regulatory histone acetylation (HAT) complex SAGA is involved in RNA polymerase II-dependent regulation of approximately 10% of yeast genes. At the promoters, SAGA is required for recruitment of the basal transcription machinery. It influences RNA polymerase II transcriptional activity through different activities such as TBP interaction (SPT3, SPT8 and SPT20) and promoter selectivity, interaction with transcription activators (GCN5, ADA2, ADA3 and TRA1), and chromatin modification through histone acetylation (GCN5) and deubiquitination (UBP8). SUS1 forms a distinct functional SAGA module with UBP8, SGF11 and SGF73 required for deubiquitination of H2B and for the maintenance of steady-state H3 methylation levels. The TREX-2 complex functions in docking export-competent ribonucleoprotein particles (mRNPs) to the nuclear entrance of the nuclear pore complex (nuclear basket), by association with components of the nuclear mRNA export machinery (MEX67-MTR2 and SUB2) in the nucleoplasm and the nucleoporin NUP1 at the nuclear basket. TREX-2 participates in mRNA export and accurate chromatin positioning in the nucleus by tethering genes to the nuclear periphery. SUS1 has also a role in mRNP biogenesis and maintenance of genome integrity through preventing RNA-mediated genome instability. Finally SUS1 has a role in response to DNA damage induced by methyl methane sulfonate (MMS) and replication arrest induced by hydroxyurea.<ref>PMID:15311284</ref> <ref>PMID:16510898</ref> <ref>PMID:16855026</ref> <ref>PMID:16760982</ref> <ref>PMID:18923079</ref> <ref>PMID:18667528</ref> <ref>PMID:18003937</ref> [[http://www.uniprot.org/uniprot/SGF11_YEAST SGF11_YEAST]] Component of the transcription regulatory histone acetylation (HAT) complex SAGA. SAGA is involved in RNA polymerase II-dependent transcriptional regulation of approximately 10% of yeast genes. At the promoters, SAGA is required for recruitment of the basal transcription machinery. It influences RNA polymerase II transcriptional activity through different activities such as TBP interaction (SPT3, SPT8 and SPT20) and promoter selectivity, interaction with transcription activators (GCN5, ADA2, ADA3 and TRA1), and chromatin modification through histone acetylation (GCN5) and deubiquitination (UBP8). SAGA acetylates nucleosomal histone H3 to some extent (to form H3K9ac, H3K14ac, H3K18ac and H3K23ac). SAGA interacts with DNA via upstream activating sequences (UASs). SGF11 is involved in transcriptional regulation of a subset of SAGA-regulated genes. Within the SAGA complex, participates in a subcomplex with SUS1, SGF73 and UBP8 required for deubiquitination of H2B and for the maintenance of steady-state H3 methylation levels. It is required to recruit UBP8 and SUS1 into the SAGA complex.<ref>PMID:15657441</ref> <ref>PMID:15657442</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 17:36, 18 December 2014

2014-12-18T17:36:16Z

←Older revision		Revision as of 17:36, 18 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3kik~~\| ~~PDB~~=3kik \| ~~SCENE~~= }}	+	==Sgf11:Sus1 complex==
-	===~~Sgf11~~:~~Sus1 complex~~===	+	<StructureSection load='3kik' size='340' side='right' caption='[[3kik]], [[Resolution\|resolution]] 2.10Å' scene=''>
-	~~{{ABSTRACT_PUBMED_20007317}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3kik]] is a 8 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=3KIK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3KIK FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3kjl\|3kjl]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SUS1, YBR111W-A ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae]), SGF11, YPL047W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae])</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=3kik FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kik OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3kik RCSB], [http://www.ebi.ac.uk/pdbsum/3kik PDBsum]</span></td></tr>
		+	</table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ki/3kik_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Sus1 is a central component of the yeast gene gating machinery, the process by which actively transcribing genes such as GAL1 become associated with nuclear pore complexes. Sus1 is a component of both the SAGA transcriptional co-activator complex and the TREX-2 complex that binds to nuclear pore complexes. TREX-2 contains two Sus1 chains that have an articulated helical hairpin fold, enabling them to wrap around an extended alpha-helix in Sac3, following a helical hydrophobic stripe. In SAGA, Sus1 binds to Sgf11 and has been proposed to provide a link between SAGA and TREX-2. We present here the crystal structure of the complex between Sus1 and the N-terminal region of Sgf11 that forms an extended alpha-helix around which Sus1 wraps in a manner that shares some similarities with the Sus1-Sac3 interface in TREX-2. However, the Sus1-binding site on Sgf11 is somewhat shorter than on Sac3 and is based on a narrower hydrophobic stripe. Engineered mutants that disrupt the Sgf11-Sus1 interaction in vitro confirm the importance of the hydrophobic helical stripe in molecular recognition. Helix alpha1 of the Sus1-articulated hairpin does not bind directly to Sgf11 and adopts a wide range of conformations within and between crystal forms, consistent with the presence of a flexible hinge and also with results from previous extensive mutagenesis studies (Klockner, C., Schneider, M., Lutz, S., Jani, D., Kressler, D., Stewart, M., Hurt, E., and Kohler, A. (2009) J. Biol. Chem. 284, 12049-12056). A single Sus1 molecule cannot bind Sgf11 and Sac3 simultaneously and this, combined with the structure of the Sus1-Sgf11 complex, indicates that Sus1 forms separate subcomplexes within SAGA and TREX-2.

-	~~==Function==~~	+	Structural basis for the interaction between yeast Spt-Ada-Gcn5 acetyltransferase (SAGA) complex components Sgf11 and Sus1.,Ellisdon AM, Jani D, Kohler A, Hurt E, Stewart M J Biol Chem. 2010 Feb 5;285(6):3850-6. Epub 2009 Dec 9. PMID:20007317<ref>PMID:20007317</ref>
-	~~[[http://www.uniprot.org/uniprot/SUS1_YEAST SUS1_YEAST]] Involved in mRNA export coupled transcription activation by association with both~~ the ~~TREX~~-~~2 and the~~ SAGA ~~complexes. The transcription regulatory histone acetylation (HAT~~) complex ~~SAGA is involved in RNA polymerase II-dependent regulation of approximately 10% of yeast genes~~. ~~At the promoters~~, ~~SAGA is required for recruitment of the basal transcription machinery. It influences RNA polymerase II transcriptional activity through different activities such as TBP interaction (SPT3~~, ~~SPT8 and SPT20) and promoter selectivity~~, ~~interaction with transcription activators (GCN5~~, ~~ADA2~~, ~~ADA3 and TRA1), and chromatin modification through histone acetylation (GCN5) and deubiquitination (UBP8)~~. SUS1 forms a distinct functional SAGA module with UBP8, SGF11 and SGF73 required for deubiquitination of H2B and for the maintenance of steady-state H3 methylation levels. The TREX-2 complex functions in docking export-competent ribonucleoprotein particles (~~mRNPs~~) ~~to the nuclear entrance of the nuclear pore complex (nuclear basket), by association with components of the nuclear mRNA export machinery (MEX67~~-~~MTR2 and SUB2) in the nucleoplasm and the nucleoporin NUP1 at the nuclear basket~~. ~~TREX-2 participates in mRNA export and accurate chromatin positioning in the nucleus by tethering genes to the nuclear periphery~~. SUS1 has also a role in mRNP biogenesis and maintenance of genome integrity through preventing RNA-mediated genome instability. Finally SUS1 has a role in response to DNA damage induced by methyl methane sulfonate (MMS) and replication arrest induced by hydroxyurea.<ref>PMID:~~15311284</ref> <ref>PMID:16510898</ref> <ref>PMID:16855026</ref> <ref>PMID:16760982</ref> <ref>PMID:18923079</ref> <ref>PMID:18667528</ref>~~ <ref>PMID:~~18003937~~</ref>	+

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[3kik]] is~~ a ~~8 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=3KIK OCA].~~	+	</div>

-	==~~Reference~~==	+	==See Also==
-	~~<ref group~~=~~"xtra">PMID:020007317</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	*[[SAGA-associated factor\|SAGA-associated factor]]
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
-	[[Category: Ellisdon, A M.]]	+	[[Category: Ellisdon, A M]]
-	[[Category: Stewart, M.]]	+	[[Category: Stewart, M]]
	[[Category: Activator]]		[[Category: Activator]]
	[[Category: Articulated hirpin fold]]		[[Category: Articulated hirpin fold]]

OCA: Protected "3kik" [edit=sysop:move=sysop]

2013-04-04T02:36:27Z

Protected "3kik" [edit=sysop:move=sysop]

←Older revision

Revision as of 02:36, 4 April 2013

OCA at 02:36, 4 April 2013

2013-04-04T02:36:20Z

←Older revision		Revision as of 02:36, 4 April 2013
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-	{{Seed}}
-	[[Image:3kik.png\|left\|200px]]
-
-	<!--
-	The line below this paragraph, containing "STRUCTURE_3kik", 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_3kik\| PDB=3kik \| SCENE= }}		{{STRUCTURE_3kik\| PDB=3kik \| SCENE= }}
-
	===Sgf11:Sus1 complex===		===Sgf11:Sus1 complex===
		+	{{ABSTRACT_PUBMED_20007317}}

-		+	==Function==
-	~~<!--~~	+	[[http://www.uniprot.org/uniprot/SUS1_YEAST SUS1_YEAST]] Involved in mRNA export coupled transcription activation by association with both the TREX-2 and the SAGA complexes. The transcription regulatory histone acetylation (HAT) complex SAGA is involved in RNA polymerase II-dependent regulation of approximately 10% of yeast genes. At the promoters, SAGA is required for recruitment of the basal transcription machinery. It influences RNA polymerase II transcriptional activity through different activities such as TBP interaction (SPT3, SPT8 and SPT20) and promoter selectivity, interaction with transcription activators (GCN5, ADA2, ADA3 and TRA1), and chromatin modification through histone acetylation (GCN5) and deubiquitination (UBP8). SUS1 forms a distinct functional SAGA module with UBP8, SGF11 and SGF73 required for deubiquitination of H2B and for the maintenance of steady-state H3 methylation levels. The TREX-2 complex functions in docking export-competent ribonucleoprotein particles (mRNPs) to the nuclear entrance of the nuclear pore complex (nuclear basket), by association with components of the nuclear mRNA export machinery (MEX67-MTR2 and SUB2) in the nucleoplasm and the nucleoporin NUP1 at the nuclear basket. TREX-2 participates in mRNA export and accurate chromatin positioning in the nucleus by tethering genes to the nuclear periphery. SUS1 has also a role in mRNP biogenesis and maintenance of genome integrity through preventing RNA-mediated genome instability. Finally SUS1 has a role in response to DNA damage induced by methyl methane sulfonate (MMS) and replication arrest induced by hydroxyurea.<ref>PMID:15311284</ref> <ref>PMID:16510898</ref> <ref>PMID:16855026</ref> <ref>PMID:16760982</ref> <ref>PMID:18923079</ref> <ref>PMID:18667528</ref> <ref>PMID:18003937</ref>
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_20007317}}, adds the Publication Abstract to the page~~	+
-	~~(as it appears on PubMed at~~ http://www.~~pubmed~~.~~gov~~), ~~where 20007317~~ is the ~~PubMed ID number~~.	+
-	-->	+
-	~~{{ABSTRACT_PUBMED_20007317}}~~	+

	==About this Structure==		==About this Structure==
-	~~3KIK~~ is a 8 ~~chains~~ structure with ~~sequences~~ 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=3KIK OCA].	+	[[3kik]] is a 8 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=3KIK OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~20007317~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:020007317</ref><references group="xtra"/><references/>
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
	[[Category: Ellisdon, A M.]]		[[Category: Ellisdon, A M.]]
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	[[Category: Translocation]]		[[Category: Translocation]]
	[[Category: Transport]]		[[Category: Transport]]
-	[[Category: Zinc]]
	[[Category: Zinc-finger]]		[[Category: Zinc-finger]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 25 12:12:16 2010''

OCA at 10:12, 25 February 2010

2010-02-25T10:12:17Z

←Older revision		Revision as of 10:12, 25 February 2010
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	{{Seed}}		{{Seed}}
-	[[Image:3kik.~~jpg~~\|left\|200px]]	+	[[Image:3kik.png\|left\|200px]]

	<!--		<!--
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	===Sgf11:Sus1 complex===		===Sgf11:Sus1 complex===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_20007317}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 20007317 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_20007317}}

	==About this Structure==		==About this Structure==
-	3KIK is a 8 chains structure of sequences 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=3KIK OCA].	+	3KIK is a 8 chains structure with sequences 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=3KIK OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:20007317</ref><references group="xtra"/>
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
	[[Category: Ellisdon, A M.]]		[[Category: Ellisdon, A M.]]
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	[[Category: Zinc-finger]]		[[Category: Zinc-finger]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Dec 9 16~~:07:~~34 2009~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 25 12:12:16 2010''

OCA at 14:07, 9 December 2009

2009-12-09T14:07:35Z

←Older revision		Revision as of 14:07, 9 December 2009
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-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3kik.jpg\|left\|200px]]

-	The ~~entry 3kik~~ is ~~ON HOLD~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3kik", 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_3kik\| PDB=3kik \| SCENE= }}

-	~~Authors~~: ~~Stewart, M., Ellisdon, A.M.~~	+	===Sgf11:Sus1 complex===

-	Description: Sgf11:Sus1 complex

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Nov 18 18~~:56:46 2009''	+	==About this Structure==
		+	3KIK is a 8 chains structure of sequences 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=3KIK OCA].
		+	[[Category: Saccharomyces cerevisiae]]
		+	[[Category: Ellisdon, A M.]]
		+	[[Category: Stewart, M.]]
		+	[[Category: Activator]]
		+	[[Category: Articulated hirpin fold]]
		+	[[Category: Chromatin regulator]]
		+	[[Category: Metal-binding]]
		+	[[Category: Mrna transport]]
		+	[[Category: Nuclear pore complex]]
		+	[[Category: Nucleus]]
		+	[[Category: Protein transport]]
		+	[[Category: Saga complex]]
		+	[[Category: Transcription]]
		+	[[Category: Transcription regulation]]
		+	[[Category: Translocation]]
		+	[[Category: Transport]]
		+	[[Category: Zinc]]
		+	[[Category: Zinc-finger]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec 9 16:07:34 2009''

OCA: New page: '''Unreleased structure''' The entry 3kik is ON HOLD Authors: Stewart, M., Ellisdon, A.M. Description: Sgf11:Sus1 complex ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ...

2009-11-18T16:56:47Z

New page: '''Unreleased structure''' The entry 3kik is ON HOLD Authors: Stewart, M., Ellisdon, A.M. Description: Sgf11:Sus1 complex ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ...

New page

'''Unreleased structure'''

The entry 3kik is ON HOLD

Authors: Stewart, M., Ellisdon, A.M.

Description: Sgf11:Sus1 complex

''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 18 18:56:46 2009''