2eul - Revision history

OCA at 09:19, 14 February 2024

2024-02-14T09:19:51Z

← Older revision		Revision as of 09:19, 14 February 2024
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	<StructureSection load='2eul' size='340' side='right'caption='[[2eul]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2eul' size='340' side='right'caption='[[2eul]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2eul]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Thet8 Thet8~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EUL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2EUL FirstGlance]. <br>		<table><tr><td colspan='2'>[[2eul]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EUL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2EUL 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">X-ray diffraction, [[Resolution\|Resolution]] 2.4Å</td></tr>
	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style~~=~~'overflow: auto; max-height: 3em;'~~>~~[[1grj\|1grj]], [[1tjl\|1tjl]]~~<~~/div></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~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">gfhI ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])~~</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=2eul FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eul OCA], [https://pdbe.org/2eul PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2eul RCSB], [https://www.ebi.ac.uk/pdbsum/2eul PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2eul ProSAT], [https://www.topsan.org/Proteins/RSGI/2eul TOPSAN]</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=2eul FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eul OCA], [https://pdbe.org/2eul PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2eul RCSB], [https://www.ebi.ac.uk/pdbsum/2eul PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2eul ProSAT], [https://www.topsan.org/Proteins/RSGI/2eul TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/GFH1_THET8 GFH1_THET8]] Inhibits all catalytic activities of RNA polymerase (RNAP) by partially occluding its substrate-binding site and preventing NTP binding.<ref>PMID:11606592</ref> <ref>PMID:14712703</ref> <ref>PMID:16298991</ref>		[https://www.uniprot.org/uniprot/GFH1_THET8 GFH1_THET8] Inhibits all catalytic activities of RNA polymerase (RNAP) by partially occluding its substrate-binding site and preventing NTP binding.<ref>PMID:11606592</ref> <ref>PMID:14712703</ref> <ref>PMID:16298991</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</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=2eul 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=2eul ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	Gre factors enhance the intrinsic endonucleolytic activity of RNA polymerase to rescue arrested transcription complexes and are thought to confer the high fidelity and processivity of RNA synthesis. The Gre factors insert the extended alpha-helical coiled-coil domains into the RNA polymerase secondary channel to position two invariant acidic residues at the coiled-coil tip near the active site to stabilize the catalytic metal ion. Gfh1, a GreA homolog from Thermus thermophilus, inhibits rather than activates RNA cleavage. Here we report the structure of the T. thermophilus Gfh1 at 2.4 A resolution revealing a two-domain architecture closely resembling that of GreA. However, the interdomain orientation is strikingly distinct (approximately 162 degrees rotation) between the two proteins. In contrast to GreA, which has two acidic residues on a well fixed self-stabilized alpha-turn, the tip of the Gfh1 coiled-coil is flexible and contains four acidic residues. This difference is likely the key to the Gre functional diversity, while Gfh1 inhibits exo- and endonucleolytic cleavage, RNA synthesis, and pyrophosphorolysis, GreA enhances only the endonucleolytic cleavage. We propose that Gfh1 acidic residues stabilize the RNA polymerase active center in a catalytically inactive configuration through Mg2+-mediated interactions. The excess of the acidic residues and inherent flexibility of the coiled-coil tip might allow Gfh1 to adjust its activity to structurally distinct substrates, thereby inhibiting diverse catalytic reactions of RNA polymerase.

	Regulation through the RNA polymerase secondary channel. Structural and functional variability of the coiled-coil transcription factors.,Symersky J, Perederina A, Vassylyeva MN, Svetlov V, Artsimovitch I, Vassylyev DG J Biol Chem. 2006 Jan 20;281(3):1309-12. Epub 2005 Nov 18. PMID:16298991<ref>PMID:16298991</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 2eul" style="background-color:#fffaf0;"></div>~~
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Thet8~~]]		[[Category: Thermus thermophilus HB8]]
	[[Category: Artsimovitch, I]]		[[Category: Artsimovitch I]]
	[[Category: Perederina, A]]		[[Category: Perederina A]]
	~~[[Category: Structural genomic~~]]		[[Category: Svetlov V]]
	[[Category: Svetlov, V]]		[[Category: Symersky J]]
	[[Category: Symersky, J]]		[[Category: Vassylyev DG]]
	[[Category: Vassylyev~~, D G~~]]		[[Category: Vassylyeva MN]]
	[[Category: Vassylyeva~~, M N]]~~
	~~[[Category: Gfh1]]~~
	~~[[Category: Rna polymerase]]~~
	~~[[Category: Rsgi]]~~
	~~[[Category: Transcription]]~~
	~~[[Category: Transcription factor~~]]

OCA at 12:30, 10 February 2021

2021-02-10T12:30:05Z

← Older revision		Revision as of 12:30, 10 February 2021
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	==Structure of the transcription factor Gfh1.==		==Structure of the transcription factor Gfh1.==
	<StructureSection load='2eul' size='340' side='right' caption='[[2eul]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2eul' size='340' side='right'caption='[[2eul]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2eul]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EUL OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2EUL FirstGlance]. <br>		<table><tr><td colspan='2'>[[2eul]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EUL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2EUL 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">[[1grj\|1grj]], [[1tjl\|1tjl]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1grj\|1grj]], [[1tjl\|1tjl]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">gfhI ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">gfhI ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</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=2eul FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eul OCA], [~~http~~://pdbe.org/2eul PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2eul RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2eul PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2eul ProSAT], [~~http~~://www.topsan.org/Proteins/RSGI/2eul TOPSAN]</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=2eul FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eul OCA], [https://pdbe.org/2eul PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2eul RCSB], [https://www.ebi.ac.uk/pdbsum/2eul PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2eul ProSAT], [https://www.topsan.org/Proteins/RSGI/2eul TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/GFH1_THET8 GFH1_THET8]] Inhibits all catalytic activities of RNA polymerase (RNAP) by partially occluding its substrate-binding site and preventing NTP binding.<ref>PMID:11606592</ref> <ref>PMID:14712703</ref> <ref>PMID:16298991</ref>		[[https://www.uniprot.org/uniprot/GFH1_THET8 GFH1_THET8]] Inhibits all catalytic activities of RNA polymerase (RNAP) by partially occluding its substrate-binding site and preventing NTP binding.<ref>PMID:11606592</ref> <ref>PMID:14712703</ref> <ref>PMID:16298991</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/eu/2eul_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/eu/2eul_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>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Large Structures]]
	[[Category: Thet8]]		[[Category: Thet8]]
	[[Category: Artsimovitch, I]]		[[Category: Artsimovitch, I]]

OCA at 07:28, 18 October 2017

2017-10-18T07:28:51Z

← Older revision		Revision as of 07:28, 18 October 2017
Line 1:		Line 1:

	==Structure of the transcription factor Gfh1.==		==Structure of the transcription factor Gfh1.==
	<StructureSection load='2eul' size='340' side='right' caption='[[2eul]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2eul' size='340' side='right' caption='[[2eul]], [[Resolution\|resolution]] 2.40Å' scene=''>
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1grj\|1grj]], [[1tjl\|1tjl]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1grj\|1grj]], [[1tjl\|1tjl]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">gfhI ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">gfhI ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</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=2eul FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eul OCA], [http://pdbe.org/2eul PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2eul RCSB], [http://www.ebi.ac.uk/pdbsum/2eul PDBsum], [http://www.topsan.org/Proteins/RSGI/2eul TOPSAN]</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=2eul FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eul OCA], [http://pdbe.org/2eul PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2eul RCSB], [http://www.ebi.ac.uk/pdbsum/2eul PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2eul ProSAT], [http://www.topsan.org/Proteins/RSGI/2eul TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 19:22, 8 February 2016

2016-02-08T19:22:08Z

← Older revision		Revision as of 19:22, 8 February 2016
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	<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=2eul ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 14:38, 10 September 2015

2015-09-10T14:38:29Z

← Older revision		Revision as of 14:38, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2eul' size='340' side='right' caption='[[2eul]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2eul' size='340' side='right' caption='[[2eul]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2eul]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Thermus_thermophilus Thermus thermophilus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EUL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EUL FirstGlance]. <br>		<table><tr><td colspan='2'>[[2eul]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EUL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EUL 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"><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">[[1grj\|1grj]], [[1tjl\|1tjl]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1grj\|1grj]], [[1tjl\|1tjl]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">gfhI ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~274 Thermus thermophilus~~])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">gfhI ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</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=2eul FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eul OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2eul RCSB], [http://www.ebi.ac.uk/pdbsum/2eul PDBsum], [http://www.topsan.org/Proteins/RSGI/2eul TOPSAN]</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=2eul FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eul OCA], [http://pdbe.org/2eul PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2eul RCSB], [http://www.ebi.ac.uk/pdbsum/2eul PDBsum], [http://www.topsan.org/Proteins/RSGI/2eul TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/~~Q5SJG6_THET8 Q5SJG6_THET8~~]] Inhibits all catalytic activities of RNA polymerase (RNAP) by partially occluding its substrate-binding site and preventing NTP binding.<ref>PMID:11606592</ref> <ref>PMID:14712703</ref> <ref>PMID:16298991</ref>		[[http://www.uniprot.org/uniprot/GFH1_THET8 GFH1_THET8]] Inhibits all catalytic activities of RNA polymerase (RNAP) by partially occluding its substrate-binding site and preventing NTP binding.<ref>PMID:11606592</ref> <ref>PMID:14712703</ref> <ref>PMID:16298991</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 28:		Line 28:
	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 2eul" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Thermus thermophilus~~]]		[[Category: Thet8]]
	[[Category: Artsimovitch, I]]		[[Category: Artsimovitch, I]]
	[[Category: Perederina, A]]		[[Category: Perederina, A]]

OCA at 01:36, 25 December 2014

2014-12-25T01:36:55Z

← Older revision		Revision as of 01:36, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2eul]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EUL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EUL FirstGlance]. <br>		<table><tr><td colspan='2'>[[2eul]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EUL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EUL FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><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><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1grj\|1grj]], [[1tjl\|1tjl]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1grj\|1grj]], [[1tjl\|1tjl]]</td></tr>
	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">gfhI ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 Thermus thermophilus])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">gfhI ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 Thermus thermophilus])</td></tr>
	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2eul FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eul OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2eul RCSB], [http://www.ebi.ac.uk/pdbsum/2eul PDBsum], [http://www.topsan.org/Proteins/RSGI/2eul TOPSAN]</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=2eul FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eul OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2eul RCSB], [http://www.ebi.ac.uk/pdbsum/2eul PDBsum], [http://www.topsan.org/Proteins/RSGI/2eul TOPSAN]</span></td></tr>
	<table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/Q5SJG6_THET8 Q5SJG6_THET8]] Inhibits all catalytic activities of RNA polymerase (RNAP) by partially occluding its substrate-binding site and preventing NTP binding.<ref>PMID:11606592</ref> <ref>PMID:14712703</ref> <ref>PMID:16298991</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 31:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
	[[Category: Artsimovitch, I.]]		[[Category: Artsimovitch, I]]
	[[Category: Perederina, A.]]		[[Category: Perederina, A]]
	[[Category: ~~RSGI, RIKEN~~ Structural ~~Genomics/Proteomics Initiative.~~]]		[[Category: Structural genomic]]
	[[Category: Svetlov, V.]]		[[Category: Svetlov, V]]
	[[Category: Symersky, J.]]		[[Category: Symersky, J]]
	[[Category: Vassylyev, D G.]]		[[Category: Vassylyev, D G]]
	[[Category: Vassylyeva, M N.]]		[[Category: Vassylyeva, M N]]
	[[Category: Gfh1]]		[[Category: Gfh1]]
	~~[[Category: Riken structural genomics/proteomics initiative]]~~
	[[Category: Rna polymerase]]		[[Category: Rna polymerase]]
	[[Category: Rsgi]]		[[Category: Rsgi]]
	~~[[Category: Structural genomic]]~~
	[[Category: Transcription]]		[[Category: Transcription]]
	[[Category: Transcription factor]]		[[Category: Transcription factor]]

OCA at 01:29, 30 September 2014

2014-09-30T01:29:19Z

← Older revision		Revision as of 01:29, 30 September 2014
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	[[Image:~~2eul~~.~~png~~\|~~left~~\|~~200px~~]]		==Structure of the transcription factor Gfh1.==
			<StructureSection load='2eul' size='340' side='right' caption='[[2eul]], [[Resolution\|resolution]] 2.40Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[2eul]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EUL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EUL FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1grj\|1grj]], [[1tjl\|1tjl]]</td></tr>
			<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">gfhI ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 Thermus thermophilus])</td></tr>
			<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2eul FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eul OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2eul RCSB], [http://www.ebi.ac.uk/pdbsum/2eul PDBsum], [http://www.topsan.org/Proteins/RSGI/2eul TOPSAN]</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/eu/2eul_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 ==
			Gre factors enhance the intrinsic endonucleolytic activity of RNA polymerase to rescue arrested transcription complexes and are thought to confer the high fidelity and processivity of RNA synthesis. The Gre factors insert the extended alpha-helical coiled-coil domains into the RNA polymerase secondary channel to position two invariant acidic residues at the coiled-coil tip near the active site to stabilize the catalytic metal ion. Gfh1, a GreA homolog from Thermus thermophilus, inhibits rather than activates RNA cleavage. Here we report the structure of the T. thermophilus Gfh1 at 2.4 A resolution revealing a two-domain architecture closely resembling that of GreA. However, the interdomain orientation is strikingly distinct (approximately 162 degrees rotation) between the two proteins. In contrast to GreA, which has two acidic residues on a well fixed self-stabilized alpha-turn, the tip of the Gfh1 coiled-coil is flexible and contains four acidic residues. This difference is likely the key to the Gre functional diversity, while Gfh1 inhibits exo- and endonucleolytic cleavage, RNA synthesis, and pyrophosphorolysis, GreA enhances only the endonucleolytic cleavage. We propose that Gfh1 acidic residues stabilize the RNA polymerase active center in a catalytically inactive configuration through Mg2+-mediated interactions. The excess of the acidic residues and inherent flexibility of the coiled-coil tip might allow Gfh1 to adjust its activity to structurally distinct substrates, thereby inhibiting diverse catalytic reactions of RNA polymerase.

	~~{{STRUCTURE_2eul\| PDB=2eul \| SCENE= }}~~		Regulation through the RNA polymerase secondary channel. Structural and functional variability of the coiled-coil transcription factors.,Symersky J, Perederina A, Vassylyeva MN, Svetlov V, Artsimovitch I, Vassylyev DG J Biol Chem. 2006 Jan 20;281(3):1309-12. Epub 2005 Nov 18. PMID:16298991<ref>PMID:16298991</ref>

	~~===Structure~~ of the ~~transcription factor Gfh1~~.~~===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_16298991}}~~		== References ==
			<references/>
	~~==About this Structure==~~		__TOC__
	~~[[2eul]] is a 4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org~~/~~wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EUL OCA].~~		</StructureSection>

	==~~Reference~~==
	<~~ref group="xtra">PMID:016298991<~~/~~ref~~><~~references group="xtra"~~/>
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
	[[Category: Artsimovitch, I.]]		[[Category: Artsimovitch, I.]]

OCA: Protected "2eul" [edit=sysop:move=sysop]

2013-01-06T10:44:15Z

Protected "2eul" [edit=sysop:move=sysop]

← Older revision	Revision as of 10:44, 6 January 2013
(No difference)

OCA at 10:44, 6 January 2013

2013-01-06T10:44:11Z

← Older revision		Revision as of 10:44, 6 January 2013
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	~~{{Seed}}~~
	[[Image:2eul.png\|left\|200px]]		[[Image:2eul.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_2eul", 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_2eul\| PDB=2eul \| SCENE= }}		{{STRUCTURE_2eul\| PDB=2eul \| SCENE= }}

	===Structure of the transcription factor Gfh1.===		===Structure of the transcription factor Gfh1.===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_16298991}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at http://www.pubmed.gov), where 16298991 is the PubMed ID number.~~
	~~-->~~
	{{ABSTRACT_PUBMED_16298991}}		{{ABSTRACT_PUBMED_16298991}}

	==About this Structure==		==About this Structure==
	~~2EUL~~ is a 4 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EUL OCA].		[[2eul]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EUL OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~16298991~~</ref><references group="xtra"/>		<ref group="xtra">PMID:016298991</ref><references group="xtra"/>
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
	[[Category: Artsimovitch, I.]]		[[Category: Artsimovitch, I.]]
Line 37:		Line 25:
	[[Category: Rsgi]]		[[Category: Rsgi]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
			[[Category: Transcription]]
	[[Category: Transcription factor]]		[[Category: Transcription factor]]

	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 02:15:47 2009''~~

OCA at 00:15, 17 February 2009

2009-02-17T00:15:48Z

← Older revision		Revision as of 00:15, 17 February 2009
Line 23:		Line 23:

	==Reference==		==Reference==
	Regulation through the RNA polymerase secondary channel. Structural and functional variability of the coiled-coil transcription factors., Symersky J, Perederina A, Vassylyeva MN, Svetlov V, Artsimovitch I, Vassylyev DG, J Biol Chem. 2006 Jan 20;281(3):1309-12. Epub 2005 Nov 18. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/16298991 16298991]~~		<ref group="xtra">PMID:16298991</ref><references group="xtra"/>
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
	[[Category: Artsimovitch, I.]]		[[Category: Artsimovitch, I.]]
Line 39:		Line 39:
	[[Category: Transcription factor]]		[[Category: Transcription factor]]

	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun Nov 16 16~~:49:~~32 2008~~''		''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 02:15:47 2009''