5o7x - Revision history

OCA at 19:10, 29 November 2023

2023-11-29T19:10:50Z

← Older revision		Revision as of 19:10, 29 November 2023
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	<StructureSection load='5o7x' size='340' side='right'caption='[[5o7x]], [[Resolution\|resolution]] 3.20Å' scene=''>		<StructureSection load='5o7x' size='340' side='right'caption='[[5o7x]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5o7x]] is a 18 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Baker's_yeast Baker's yeast~~]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5n5x 5n5x]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5O7X OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5O7X FirstGlance]. <br>		<table><tr><td colspan='2'>[[5o7x]] is a 18 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5n5x 5n5x]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5O7X OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5O7X FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=MG:MAGNESIUM+ION'>MG</scene~~>, ~~<scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 3.2Å</td></tr>
	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~RRN6, YBL014C, YBL0311, YBL0312 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=559292 Baker~~'~~s yeast])~~, ~~RRN7, YJL025W, J1273 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=559292 Baker~~'~~s yeast]), RRN11, YML043C, YM9827.09C ([http:~~/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])~~</td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=5o7x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5o7x OCA], [~~http~~://pdbe.org/5o7x PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5o7x RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5o7x PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5o7x 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=5o7x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5o7x OCA], [https://pdbe.org/5o7x PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5o7x RCSB], [https://www.ebi.ac.uk/pdbsum/5o7x PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5o7x ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/RRN6_YEAST RRN6_YEAST]] Acts as component of the core factor (CF) complex which is essential for the initiation of rDNA transcription by RNA polymerase I. After binding of UAF (upstream activation factor) to an upstream element of the promoter, CF is recruited in a SPT15/TBP-dependent manner to form a preinitiation complex.<ref>PMID:8887672</ref> [[http://www.uniprot.org/uniprot/RRN11_YEAST RRN11_YEAST]] Acts as component of the core factor (CF) complex which is essential for the initiation of rDNA transcription by RNA polymerase I. After binding of UAF (upstream activation factor) to an upstream element of the promoter, CF is recruited in a SPT15/TBP-dependent manner to form a preinitiation complex.<ref>PMID:8887672</ref> [[http://www.uniprot.org/uniprot/RRN7_YEAST RRN7_YEAST]] Component of RNA polymerase I core factor complex (CF) that acts as a SUA7/TFIIB-like factor and plays a key role in multiple steps during transcription initiation such as pre-initiation complex (PIC) assembly and postpolymerase recruitment events in polymerase I (Pol I) transcription. Binds rDNA promoters and plays a role in Pol I recruitment. After binding of UAF (upstream activation factor) to an upstream element of the promoter, CF is recruited in a SPT15/TBP-dependent manner to form a pre-initiation complex.<ref>PMID:21921198</ref> <ref>PMID:21940764</ref> <ref>PMID:8887672</ref>		[https://www.uniprot.org/uniprot/RRN7_YEAST RRN7_YEAST] Component of RNA polymerase I core factor complex (CF) that acts as a SUA7/TFIIB-like factor and plays a key role in multiple steps during transcription initiation such as pre-initiation complex (PIC) assembly and postpolymerase recruitment events in polymerase I (Pol I) transcription. Binds rDNA promoters and plays a role in Pol I recruitment. After binding of UAF (upstream activation factor) to an upstream element of the promoter, CF is recruited in a SPT15/TBP-dependent manner to form a pre-initiation complex.<ref>PMID:21921198</ref> <ref>PMID:21940764</ref> <ref>PMID:8887672</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 5o7x" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5o7x" style="background-color:#fffaf0;"></div>

			==See Also==
			*[[Transcription initiation factors 3D structures\|Transcription initiation factors 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	~~[[Category: Baker's yeast]]~~
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Baejen, C]]		[[Category: Saccharomyces cerevisiae S288C]]
	[[Category: Bernecky, C]]		[[Category: Baejen C]]
	[[Category: Cramer, P]]		[[Category: Bernecky C]]
	[[Category: Engel, C]]		[[Category: Cramer P]]
	[[Category: Gubbey, T]]		[[Category: Engel C]]
	[[Category: Neyer, S]]		[[Category: Gubbey T]]
	[[Category: Oberthuer, C]]		[[Category: Neyer S]]
	[[Category: Sainsbury, S]]		[[Category: Oberthuer C]]
	~~[[Category: Core factor]]~~		[[Category: Sainsbury S]]
	~~[[Category: Rna polymerase i initiation]]~~
	~~[[Category: Transcription~~]]

OCA at 06:53, 16 October 2019

2019-10-16T06:53:08Z

← Older revision		Revision as of 06:53, 16 October 2019
Line 1:		Line 1:

	==CRYSTAL STRUCTURE OF S. CEREVISIAE CORE FACTOR AT 3.2A RESOLUTION==		==CRYSTAL STRUCTURE OF S. CEREVISIAE CORE FACTOR AT 3.2A RESOLUTION==
	<StructureSection load='5o7x' size='340' side='right' caption='[[5o7x]], [[Resolution\|resolution]] 3.20Å' scene=''>		<StructureSection load='5o7x' size='340' side='right'caption='[[5o7x]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5o7x]] is a 18 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5n5x 5n5x]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5O7X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5O7X FirstGlance]. <br>		<table><tr><td colspan='2'>[[5o7x]] is a 18 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5n5x 5n5x]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5O7X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5O7X FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RRN6, YBL014C, YBL0311, YBL0312 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast]), RRN7, YJL025W, J1273 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast]), RRN11, YML043C, YM9827.09C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])</td></tr>
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5o7x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5o7x OCA], [http://pdbe.org/5o7x PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5o7x RCSB], [http://www.ebi.ac.uk/pdbsum/5o7x PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5o7x 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=5o7x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5o7x OCA], [http://pdbe.org/5o7x PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5o7x RCSB], [http://www.ebi.ac.uk/pdbsum/5o7x PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5o7x ProSAT]</span></td></tr>
	</table>		</table>
Line 22:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Baker's yeast]]
			[[Category: Large Structures]]
	[[Category: Baejen, C]]		[[Category: Baejen, C]]
	[[Category: Bernecky, C]]		[[Category: Bernecky, C]]

OCA: Protected "5o7x" [edit=sysop:move=sysop]

2017-08-04T04:02:09Z

Protected "5o7x" [edit=sysop:move=sysop]

← Older revision	Revision as of 04:02, 4 August 2017
(No difference)

OCA: New page: ==CRYSTAL STRUCTURE OF S. CEREVISIAE CORE FACTOR AT 3.2A RESOLUTION==
2017-08-04T04:02:07Z

New page: ==CRYSTAL STRUCTURE OF S. CEREVISIAE CORE FACTOR AT 3.2A RESOLUTION== <StructureSection load='5o7x' size='340' side='right' caption='5o7x, resolution 3.20Å' scene...

New page

==CRYSTAL STRUCTURE OF S. CEREVISIAE CORE FACTOR AT 3.2A RESOLUTION==
<StructureSection load='5o7x' size='340' side='right' caption='[[5o7x]], [[Resolution|resolution]] 3.20Å' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[5o7x]] is a 18 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5n5x 5n5x]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5O7X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5O7X FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=5o7x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5o7x OCA], [http://pdbe.org/5o7x PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5o7x RCSB], [http://www.ebi.ac.uk/pdbsum/5o7x PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5o7x ProSAT]</span></td></tr>
</table>
== Function ==
[[http://www.uniprot.org/uniprot/RRN6_YEAST RRN6_YEAST]] Acts as component of the core factor (CF) complex which is essential for the initiation of rDNA transcription by RNA polymerase I. After binding of UAF (upstream activation factor) to an upstream element of the promoter, CF is recruited in a SPT15/TBP-dependent manner to form a preinitiation complex.<ref>PMID:8887672</ref> [[http://www.uniprot.org/uniprot/RRN11_YEAST RRN11_YEAST]] Acts as component of the core factor (CF) complex which is essential for the initiation of rDNA transcription by RNA polymerase I. After binding of UAF (upstream activation factor) to an upstream element of the promoter, CF is recruited in a SPT15/TBP-dependent manner to form a preinitiation complex.<ref>PMID:8887672</ref> [[http://www.uniprot.org/uniprot/RRN7_YEAST RRN7_YEAST]] Component of RNA polymerase I core factor complex (CF) that acts as a SUA7/TFIIB-like factor and plays a key role in multiple steps during transcription initiation such as pre-initiation complex (PIC) assembly and postpolymerase recruitment events in polymerase I (Pol I) transcription. Binds rDNA promoters and plays a role in Pol I recruitment. After binding of UAF (upstream activation factor) to an upstream element of the promoter, CF is recruited in a SPT15/TBP-dependent manner to form a pre-initiation complex.<ref>PMID:21921198</ref> <ref>PMID:21940764</ref> <ref>PMID:8887672</ref>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Transcription initiation at the ribosomal RNA promoter requires RNA polymerase (Pol) I and the initiation factors Rrn3 and core factor (CF). Here, we combine X-ray crystallography and cryo-electron microscopy (cryo-EM) to obtain a molecular model for basal Pol I initiation. The three-subunit CF binds upstream promoter DNA, docks to the Pol I-Rrn3 complex, and loads DNA into the expanded active center cleft of the polymerase. DNA unwinding between the Pol I protrusion and clamp domains enables cleft contraction, resulting in an active Pol I conformation and RNA synthesis. Comparison with the Pol II system suggests that promoter specificity relies on a distinct "bendability" and "meltability" of the promoter sequence that enables contacts between initiation factors, DNA, and polymerase.

Structural Basis of RNA Polymerase I Transcription Initiation.,Engel C, Gubbey T, Neyer S, Sainsbury S, Oberthuer C, Baejen C, Bernecky C, Cramer P Cell. 2017 Mar 23;169(1):120-131.e22. doi: 10.1016/j.cell.2017.03.003. PMID:28340337<ref>PMID:28340337</ref>

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 5o7x" style="background-color:#fffaf0;"></div>
== References ==
<references/>
TOC
</StructureSection>
[[Category: Baejen, C]]
[[Category: Bernecky, C]]
[[Category: Cramer, P]]
[[Category: Engel, C]]
[[Category: Gubbey, T]]
[[Category: Neyer, S]]
[[Category: Oberthuer, C]]
[[Category: Sainsbury, S]]
[[Category: Core factor]]
[[Category: Rna polymerase i initiation]]
[[Category: Transcription]]