3bit - Revision history

OCA at 09:29, 21 February 2024

2024-02-21T09:29:15Z

← Older revision		Revision as of 09:29, 21 February 2024
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	<StructureSection load='3bit' size='340' side='right'caption='[[3bit]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='3bit' size='340' side='right'caption='[[3bit]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3bit]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_18824 Atcc 18824~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BIT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BIT FirstGlance]. <br>		<table><tr><td colspan='2'>[[3bit]] is a 2 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=3BIT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BIT FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=BME:BETA~~-~~MERCAPTOETHANOL'>BME</scene>~~, ~~<scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 1.9Å</td></tr>
	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~MSE~~:~~SELENOMETHIONINE~~'>~~MSE~~</scene><~~/td></tr>~~		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b~~></td><~~td class~~=~~"sblockDat"><div style~~=~~'overflow~~: ~~auto; max-height: 3em;~~'>~~[[3bip\|3bip]], [[3biq\|3biq]]~~</~~div~~><~~/td></tr>~~
	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">SPT16, CDC68, SSF1 ([https://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=3bit FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bit OCA], [https://pdbe.org/3bit PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bit RCSB], [https://www.ebi.ac.uk/pdbsum/3bit PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bit 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=3bit FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bit OCA], [https://pdbe.org/3bit PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bit RCSB], [https://www.ebi.ac.uk/pdbsum/3bit PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bit ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/SPT16_YEAST SPT16_YEAST]
	== 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=3bit 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=3bit ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	yFACT (heterodimers of Saccharomyces cerevisiae Spt16-Pob3 combined with Nhp6) binds to and alters the properties of nucleosomes. The essential function of yFACT is not disrupted by deletion of the N-terminal domain (NTD) of Spt16 or by mutation of the middle domain of Pob3, but either alteration makes yeast cells sensitive to DNA replication stress. We have determined the structure of the Spt16 NTD and find evidence for a conserved potential peptide-binding site. Pob3-M also contains a putative binding site, and we show that these two sites perform an overlapping essential function. We find that yFACT can bind the N-terminal tails of some histones and that this interaction is important for yFACT-nucleosome binding. However, neither the Spt16 NTD nor a key residue in the putative Pob3-M-binding site was required for interactions with histone N termini or for yFACT-mediated nucleosome reorganization in vitro. Instead, both potential binding sites interact functionally with the C-terminal docking domain of the histone H2A. yFACT therefore appears to make multiple contacts with different sites within nucleosomes, and these interactions are partially redundant with one another. The docking domain of H2A is identified as an important participant in maintaining stability during yFACT-mediated nucleosome reorganization, suggesting new models for the mechanism of this activity.

	Structural and functional analysis of the Spt16p N-terminal domain reveals overlapping roles of yFACT subunits.,VanDemark AP, Xin H, McCullough L, Rawlins R, Bentley S, Heroux A, Stillman DJ, Hill CP, Formosa T J Biol Chem. 2008 Feb 22;283(8):5058-68. Epub 2007 Dec 18. PMID:18089575<ref>PMID:18089575</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 3bit" style="background-color:#fffaf0;"></div>~~
	~~== References ==~~
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	~~[[Category: Atcc 18824]]~~
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Bentley, S]]		[[Category: Saccharomyces cerevisiae]]
	[[Category: David~~, S J~~]]		[[Category: Bentley S]]
	[[Category: Formosa, T]]		[[Category: David SJ]]
	[[Category: Heroux, A]]		[[Category: Formosa T]]
	[[Category: Hill~~, C P~~]]		[[Category: Heroux A]]
	[[Category: McCullough, L]]		[[Category: Hill CP]]
	[[Category: Rawlins, R]]		[[Category: McCullough L]]
	[[Category: VanDemark~~, A P~~]]		[[Category: Rawlins R]]
	[[Category: Xin, H]]		[[Category: VanDemark AP]]
	~~[[Category: Activator]]~~		[[Category: Xin H]]
	~~[[Category: Aminopeptidase]]~~
	~~[[Category: Chromatin]]~~
	~~[[Category: Chromosomal protein]]~~
	~~[[Category: Dna damage]]~~
	~~[[Category: Dna repair]]~~
	~~[[Category: Dna replication]]~~
	~~[[Category: Fact]]~~
	~~[[Category: Nucleus]]~~
	~~[[Category: Phosphoprotein]]~~
	~~[[Category: Pita-bread]]~~
	~~[[Category: Replication]]~~
	~~[[Category: Repressor]]~~
	~~[[Category: Transcription]]~~
	~~[[Category: Transcription regulation~~]]

OCA at 10:43, 12 January 2022

2022-01-12T10:43:39Z

← Older revision		Revision as of 10:43, 12 January 2022
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	==Crystal structure of yeast Spt16 N-terminal Domain==		==Crystal structure of yeast Spt16 N-terminal Domain==
	<StructureSection load='3bit' size='340' side='right' caption='[[3bit]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='3bit' size='340' side='right'caption='[[3bit]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3bit]] is a 2 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=3BIT OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3BIT FirstGlance]. <br>		<table><tr><td colspan='2'>[[3bit]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BIT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BIT FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bip\|3bip]], [[3biq\|3biq]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3bip\|3bip]], [[3biq\|3biq]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SPT16, CDC68, SSF1 ([~~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">SPT16, CDC68, SSF1 ([https://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=3bit FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bit OCA], [~~http~~://pdbe.org/3bit PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3bit RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3bit PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3bit 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=3bit FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bit OCA], [https://pdbe.org/3bit PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bit RCSB], [https://www.ebi.ac.uk/pdbsum/3bit PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bit ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 14:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bi/3bit_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bi/3bit_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 34:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 18824]]		[[Category: Atcc 18824]]
			[[Category: Large Structures]]
	[[Category: Bentley, S]]		[[Category: Bentley, S]]
	[[Category: David, S J]]		[[Category: David, S J]]

OCA at 08:04, 25 October 2017

2017-10-25T08:04:15Z

← Older revision		Revision as of 08:04, 25 October 2017
Line 1:		Line 1:

	==Crystal structure of yeast Spt16 N-terminal Domain==		==Crystal structure of yeast Spt16 N-terminal Domain==
	<StructureSection load='3bit' size='340' side='right' caption='[[3bit]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='3bit' size='340' side='right' caption='[[3bit]], [[Resolution\|resolution]] 1.90Å' scene=''>
Line 7:		Line 8:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bip\|3bip]], [[3biq\|3biq]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bip\|3bip]], [[3biq\|3biq]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SPT16, CDC68, SSF1 ([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">SPT16, CDC68, SSF1 ([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=3bit FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bit OCA], [http://pdbe.org/3bit PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3bit RCSB], [http://www.ebi.ac.uk/pdbsum/3bit 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=3bit FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bit OCA], [http://pdbe.org/3bit PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3bit RCSB], [http://www.ebi.ac.uk/pdbsum/3bit PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3bit ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 15:26, 9 February 2016

2016-02-09T15:26:22Z

← Older revision		Revision as of 15:26, 9 February 2016
Line 2:		Line 2:
	<StructureSection load='3bit' size='340' side='right' caption='[[3bit]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='3bit' size='340' side='right' caption='[[3bit]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3bit]] is a 2 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=3BIT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BIT FirstGlance]. <br>		<table><tr><td colspan='2'>[[3bit]] is a 2 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=3BIT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BIT FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bip\|3bip]], [[3biq\|3biq]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bip\|3bip]], [[3biq\|3biq]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SPT16, CDC68, SSF1 ([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">SPT16, CDC68, SSF1 ([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=3bit FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bit OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bit RCSB], [http://www.ebi.ac.uk/pdbsum/3bit 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=3bit FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bit OCA], [http://pdbe.org/3bit PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3bit RCSB], [http://www.ebi.ac.uk/pdbsum/3bit PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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=3bit 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 3bit" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Saccharomyces cerevisiae~~]]		[[Category: Atcc 18824]]
	[[Category: Bentley, S]]		[[Category: Bentley, S]]
	[[Category: David, S J]]		[[Category: David, S J]]

OCA at 07:43, 25 December 2014

2014-12-25T07:43:11Z

← Older revision		Revision as of 07:43, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3bit]] is a 2 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=3BIT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BIT FirstGlance]. <br>		<table><tr><td colspan='2'>[[3bit]] is a 2 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=3BIT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BIT FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene><br>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bip\|3bip]], [[3biq\|3biq]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bip\|3bip]], [[3biq\|3biq]]</td></tr>
	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SPT16, CDC68, SSF1 ([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">SPT16, CDC68, SSF1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae])</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=3bit FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bit OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bit RCSB], [http://www.ebi.ac.uk/pdbsum/3bit 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=3bit FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bit OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bit RCSB], [http://www.ebi.ac.uk/pdbsum/3bit PDBsum]</span></td></tr>
	<table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 32:
	</StructureSection>		</StructureSection>
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
	[[Category: Bentley, S.]]		[[Category: Bentley, S]]
	[[Category: David, S J.]]		[[Category: David, S J]]
	[[Category: Formosa, T.]]		[[Category: Formosa, T]]
	[[Category: Heroux, A.]]		[[Category: Heroux, A]]
	[[Category: Hill, C P.]]		[[Category: Hill, C P]]
	[[Category: McCullough, L.]]		[[Category: McCullough, L]]
	[[Category: Rawlins, R.]]		[[Category: Rawlins, R]]
	[[Category: VanDemark, A P.]]		[[Category: VanDemark, A P]]
	[[Category: Xin, H.]]		[[Category: Xin, H]]
	[[Category: Activator]]		[[Category: Activator]]
	[[Category: Aminopeptidase]]		[[Category: Aminopeptidase]]

OCA at 21:21, 2 October 2014

2014-10-02T21:21:57Z

← Older revision		Revision as of 21:21, 2 October 2014
Line 1:		Line 1:
	[[Image:~~3bit~~.~~png~~\|~~left~~\|~~200px~~]]		==Crystal structure of yeast Spt16 N-terminal Domain==
			<StructureSection load='3bit' size='340' side='right' caption='[[3bit]], [[Resolution\|resolution]] 1.90Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[3bit]] is a 2 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=3BIT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BIT FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene><br>
			<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bip\|3bip]], [[3biq\|3biq]]</td></tr>
			<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SPT16, CDC68, SSF1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae])</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=3bit FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bit OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bit RCSB], [http://www.ebi.ac.uk/pdbsum/3bit 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/bi/3bit_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 ==
			yFACT (heterodimers of Saccharomyces cerevisiae Spt16-Pob3 combined with Nhp6) binds to and alters the properties of nucleosomes. The essential function of yFACT is not disrupted by deletion of the N-terminal domain (NTD) of Spt16 or by mutation of the middle domain of Pob3, but either alteration makes yeast cells sensitive to DNA replication stress. We have determined the structure of the Spt16 NTD and find evidence for a conserved potential peptide-binding site. Pob3-M also contains a putative binding site, and we show that these two sites perform an overlapping essential function. We find that yFACT can bind the N-terminal tails of some histones and that this interaction is important for yFACT-nucleosome binding. However, neither the Spt16 NTD nor a key residue in the putative Pob3-M-binding site was required for interactions with histone N termini or for yFACT-mediated nucleosome reorganization in vitro. Instead, both potential binding sites interact functionally with the C-terminal docking domain of the histone H2A. yFACT therefore appears to make multiple contacts with different sites within nucleosomes, and these interactions are partially redundant with one another. The docking domain of H2A is identified as an important participant in maintaining stability during yFACT-mediated nucleosome reorganization, suggesting new models for the mechanism of this activity.

	~~{{STRUCTURE_3bit\| PDB=3bit \| SCENE= }}~~		Structural and functional analysis of the Spt16p N-terminal domain reveals overlapping roles of yFACT subunits.,VanDemark AP, Xin H, McCullough L, Rawlins R, Bentley S, Heroux A, Stillman DJ, Hill CP, Formosa T J Biol Chem. 2008 Feb 22;283(8):5058-68. Epub 2007 Dec 18. PMID:18089575<ref>PMID:18089575</ref>

	~~===Crystal structure~~ of ~~yeast Spt16 N-terminal Domain===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_18089575}}~~		== References ==
			<references/>
	~~==About this Structure==~~		__TOC__
	~~[[3bit]] is a 2 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=3BIT OCA].~~		</StructureSection>

	==~~Reference~~==
	<~~ref group="xtra">PMID:018089575<~~/~~ref~~><~~references group="xtra"~~/>
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
	[[Category: Bentley, S.]]		[[Category: Bentley, S.]]

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

2013-01-07T18:53:13Z

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

← Older revision	Revision as of 18:53, 7 January 2013
(No difference)

OCA at 18:53, 7 January 2013

2013-01-07T18:53:11Z

← Older revision		Revision as of 18:53, 7 January 2013
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	~~{{Seed}}~~
	[[Image:3bit.png\|left\|200px]]		[[Image:3bit.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_3bit", 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_3bit\| PDB=3bit \| SCENE= }}		{{STRUCTURE_3bit\| PDB=3bit \| SCENE= }}

	===Crystal structure of yeast Spt16 N-terminal Domain===		===Crystal structure of yeast Spt16 N-terminal Domain===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_18089575}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at http://www.pubmed.gov), where 18089575 is the PubMed ID number.~~
	~~-->~~
	{{ABSTRACT_PUBMED_18089575}}		{{ABSTRACT_PUBMED_18089575}}

	==About this Structure==		==About this Structure==
	~~3BIT~~ is a 2 ~~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=3BIT OCA].		[[3bit]] is a 2 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=3BIT OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~18089575~~</ref><references group="xtra"/>		<ref group="xtra">PMID:018089575</ref><references group="xtra"/>
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
	[[Category: Bentley, S.]]		[[Category: Bentley, S.]]
Line 38:		Line 26:
	[[Category: Chromatin]]		[[Category: Chromatin]]
	[[Category: Chromosomal protein]]		[[Category: Chromosomal protein]]
	~~[[Category: Coiled coil]]~~
	[[Category: Dna damage]]		[[Category: Dna damage]]
	[[Category: Dna repair]]		[[Category: Dna repair]]
Line 50:		Line 37:
	[[Category: Transcription]]		[[Category: Transcription]]
	[[Category: Transcription regulation]]		[[Category: Transcription regulation]]

	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 10:48:58 2009''~~

OCA at 08:48, 17 February 2009

2009-02-17T08:48:59Z

← Older revision		Revision as of 08:48, 17 February 2009
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	==About this Structure==		==About this Structure==
	3BIT is a ~~[[Single protein]]~~ structure of ~~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=3BIT OCA].		3BIT is a 2 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=3BIT OCA].

	==Reference==		==Reference==
	Structural and functional analysis of the Spt16p N-terminal domain reveals overlapping roles of yFACT subunits., VanDemark AP, Xin H, McCullough L, Rawlins R, Bentley S, Heroux A, Stillman DJ, Hill CP, Formosa T, J Biol Chem. 2008 Feb 22;283(8):5058-68. Epub 2007 Dec 18. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18089575 18089575]~~		<ref group="xtra">PMID:18089575</ref><references group="xtra"/>
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
	~~[[Category: Single protein]]~~
	[[Category: Bentley, S.]]		[[Category: Bentley, S.]]
	[[Category: David, S J.]]		[[Category: David, S J.]]
Line 52:		Line 51:
	[[Category: Transcription regulation]]		[[Category: Transcription regulation]]

	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Sep 24 09~~:01:~~43 2008~~''		''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 10:48:58 2009''

OCA at 06:01, 24 September 2008

2008-09-24T06:01:44Z

← Older revision		Revision as of 06:01, 24 September 2008
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	[[Image:3bit.~~jpg~~\|left\|200px]]		{{Seed}}
			[[Image:3bit.png\|left\|200px]]

	<!--		<!--
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	{{STRUCTURE_3bit\| PDB=3bit \| SCENE= }}		{{STRUCTURE_3bit\| PDB=3bit \| SCENE= }}

	~~'''~~Crystal structure of yeast Spt16 N-terminal Domain~~'''~~		===Crystal structure of yeast Spt16 N-terminal Domain===


			<!--
			The line below this paragraph, {{ABSTRACT_PUBMED_18089575}}, adds the Publication Abstract to the page
			(as it appears on PubMed at http://www.pubmed.gov), where 18089575 is the PubMed ID number.
			-->
			{{ABSTRACT_PUBMED_18089575}}

	==About this Structure==		==About this Structure==
	3BIT is a [[Single protein]] structure of 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=3BIT OCA].		3BIT is a [[Single protein]] structure of 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=3BIT OCA].

			==Reference==
			Structural and functional analysis of the Spt16p N-terminal domain reveals overlapping roles of yFACT subunits., VanDemark AP, Xin H, McCullough L, Rawlins R, Bentley S, Heroux A, Stillman DJ, Hill CP, Formosa T, J Biol Chem. 2008 Feb 22;283(8):5058-68. Epub 2007 Dec 18. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18089575 18089575]
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
	[[Category: Single protein]]		[[Category: Single protein]]
Line 41:		Line 51:
	[[Category: Transcription]]		[[Category: Transcription]]
	[[Category: Transcription regulation]]		[[Category: Transcription regulation]]
	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun May 4 20~~:49:34 2008''
			''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 24 09:01:43 2008''