6k1p - Revision history

OCA at 10:40, 27 March 2024

OCA — Wed, 27 Mar 2024 10:40:49 GMT

←Older revision		Revision as of 10:40, 27 March 2024
Line 3:		Line 3:
	<SX load='6k1p' size='340' side='right' viewer='molstar' caption='[[6k1p]], [[Resolution\|resolution]] 3.87Å' scene=''>		<SX load='6k1p' size='340' side='right' viewer='molstar' caption='[[6k1p]], [[Resolution\|resolution]] 3.87Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6k1p]] is a 11 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/ ], [~~http~~://en.wikipedia.org/wiki/~~African_clawed_frog African clawed frog~~] and [~~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=6irn 6irn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K1P OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6K1P FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6k1p]] is a 11 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12], [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C] and [https://en.wikipedia.org/wiki/Xenopus_laevis Xenopus laevis]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=6irn 6irn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K1P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6K1P FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=BEF:BERYLLIUM+TRIFLUORIDE+ION'>BEF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>~~</td></tr>~~	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 3.87Å</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">XELAEV_18002543mg ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=8355 African clawed frog]), hist1h2aj, LOC494591, XELAEV_18003602mg ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=8355 African clawed frog]), ISW1, YBR245C, YBR1633 ([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=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=BEF:BERYLLIUM+TRIFLUORIDE+ION'>BEF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=6k1p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k1p OCA], [~~http~~://pdbe.org/6k1p PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6k1p RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6k1p PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6k1p 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=6k1p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k1p OCA], [https://pdbe.org/6k1p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6k1p RCSB], [https://www.ebi.ac.uk/pdbsum/6k1p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6k1p ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~H2B11_XENLA H2B11_XENLA~~]] Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling. [[http://www.uniprot.org/uniprot/ISW1_YEAST ISW1_YEAST]] Catalytic component of ISW1-type complexes, which act by remodeling the chromatin by catalyzing an ATP-dependent alteration in the structure of nucleosomal DNA. They are involved in coordinating transcriptional repression, activation and elongation phases. The ISW1A complex represses gene expression at initiation through specific positioning of a promoter proximal dinucleosome. The ISW1B complex acts within coding regions to control the amount of RNA polymerase II released into productive elongation and to coordinate elongation with termination and pre-mRNA processing.<ref>PMID:10090725</ref> <ref>PMID:11238381</ref> <ref>PMID:14622597</ref> <ref>PMID:12482963</ref> [[http://www.uniprot.org/uniprot/H4_XENLA H4_XENLA]] Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.	+	[https://www.uniprot.org/uniprot/A0A310TTQ1_XENLA A0A310TTQ1_XENLA]
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	Chromatin remodelers are diverse enzymes, and different models have been proposed to explain how these proteins work. Here we report the 3.3 A-resolution cryogenic electron microscopy (cryo-EM) structures of Saccharomyces cerevisiae ISWI (ISW1) in complex with the nucleosome in adenosine diphosphate (ADP)-bound and ADP-BeFx-bound states. The data show that after nucleosome binding, ISW1 is activated by substantial rearrangement of the catalytic domains, with the regulatory AutoN domain packing the first RecA-like core and the NegC domain being disordered. The high-resolution structure reveals local DNA distortion and translocation induced by ISW1 in the ADP-bound state, which is essentially identical to that induced by the Snf2 chromatin remodeler, suggesting a common mechanism of DNA translocation. The histone core remains largely unperturbed, and prevention of histone distortion by crosslinking did not inhibit the activity of yeast ISW1 or its human homolog. Together, our findings suggest a general mechanism of chromatin remodeling involving local DNA distortion without notable histone deformation.	+
-		+
-	Structures of the ISWI-nucleosome complex reveal a conserved mechanism of chromatin remodeling.,Yan L, Wu H, Li X, Gao N, Chen Z Nat Struct Mol Biol. 2019 Mar 13. pii: 10.1038/s41594-019-0199-9. doi:, 10.1038/s41594-019-0199-9. PMID:30872815<ref>PMID:30872815</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 6k1p" style="background-color:#fffaf0;"></div>~~	+

	==See Also==		==See Also==
	*[[Histone 3D structures\|Histone 3D structures]]		*[[Histone 3D structures\|Histone 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</SX>		</SX>
-	[[Category: ~~African clawed frog]]~~	+	[[Category: Escherichia coli K-12]]
-	~~[[Category: Baker's yeast~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Chen, Z C~~]]	+	[[Category: Saccharomyces cerevisiae S288C]]
-	[[Category: ~~Gao, N~~]]	+	[[Category: Xenopus laevis]]
-	[[Category: ~~Li, X M~~]]	+	[[Category: Chen ZC]]
-	[[Category: ~~Wu, H~~]]	+	[[Category: Gao N]]
-	[[Category: ~~Yan, L J~~]]	+	[[Category: Li XM]]
-	[[Category: ~~Chromatin remodelling~~]]	+	[[Category: Wu H]]
-	[[Category: ~~Dna binding protein-dna complex~~]]	+	[[Category: Yan LJ]]

OCA at 02:18, 11 April 2020

OCA — Sat, 11 Apr 2020 02:18:46 GMT

←Older revision		Revision as of 02:18, 11 April 2020
Line 3:		Line 3:
	<SX load='6k1p' size='340' side='right' viewer='molstar' caption='[[6k1p]], [[Resolution\|resolution]] 3.87Å' scene=''>		<SX load='6k1p' size='340' side='right' viewer='molstar' caption='[[6k1p]], [[Resolution\|resolution]] 3.87Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6k1p]] is a 11 chain structure with sequence from [http://en.wikipedia.org/wiki/ ], [http://en.wikipedia.org/wiki/African_clawed_frog African clawed frog] and [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=6irn 6irn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K1P OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6K1P FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6k1p]] is a 11 chain structure with sequence from [http://en.wikipedia.org/wiki/ ], [http://en.wikipedia.org/wiki/African_clawed_frog African clawed frog] and [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=6irn 6irn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K1P OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6K1P FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=BEF:BERYLLIUM+TRIFLUORIDE+ION'>BEF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=BEF:BERYLLIUM+TRIFLUORIDE+ION'>BEF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">XELAEV_18002543mg ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=8355 African clawed frog]), hist1h2aj, LOC494591, XELAEV_18003602mg ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=8355 African clawed frog]), ISW1, YBR245C, YBR1633 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">XELAEV_18002543mg ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=8355 African clawed frog]), hist1h2aj, LOC494591, XELAEV_18003602mg ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=8355 African clawed frog]), ISW1, YBR245C, YBR1633 ([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=6k1p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k1p OCA], [http://pdbe.org/6k1p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6k1p RCSB], [http://www.ebi.ac.uk/pdbsum/6k1p PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6k1p ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6k1p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k1p OCA], [http://pdbe.org/6k1p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6k1p RCSB], [http://www.ebi.ac.uk/pdbsum/6k1p PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6k1p ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 22:22, 6 March 2020

OCA — Fri, 06 Mar 2020 22:22:09 GMT

←Older revision		Revision as of 22:22, 6 March 2020
Line 1:		Line 1:

	==The complex of ISWI-nucleosome in the ADP.BeF-bound state==		==The complex of ISWI-nucleosome in the ADP.BeF-bound state==
-	<~~StructureSection~~ load='6k1p' size='340' side='right'caption='[[6k1p]], [[Resolution\|resolution]] 3.87Å' scene=''>	+	<SX load='6k1p' size='340' side='right' viewer='molstar' caption='[[6k1p]], [[Resolution\|resolution]] 3.87Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6k1p]] is a 11 chain structure with sequence from [http://en.wikipedia.org/wiki/ ], [http://en.wikipedia.org/wiki/African_clawed_frog African clawed frog] and [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=6irn 6irn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K1P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6K1P FirstGlance]. <br>		<table><tr><td colspan='2'>[[6k1p]] is a 11 chain structure with sequence from [http://en.wikipedia.org/wiki/ ], [http://en.wikipedia.org/wiki/African_clawed_frog African clawed frog] and [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=6irn 6irn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K1P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6K1P FirstGlance]. <br>
Line 25:		Line 25:
	<references/>		<references/>
	__TOC__		__TOC__
-	</~~StructureSection~~>	+	</SX>
	[[Category: African clawed frog]]		[[Category: African clawed frog]]
	[[Category: Baker's yeast]]		[[Category: Baker's yeast]]

OCA at 08:18, 6 November 2019

OCA — Wed, 06 Nov 2019 08:18:00 GMT

←Older revision		Revision as of 08:18, 6 November 2019
Line 3:		Line 3:
	<StructureSection load='6k1p' size='340' side='right'caption='[[6k1p]], [[Resolution\|resolution]] 3.87Å' scene=''>		<StructureSection load='6k1p' size='340' side='right'caption='[[6k1p]], [[Resolution\|resolution]] 3.87Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6k1p]] is a 11 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=6irn 6irn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K1P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6K1P FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6k1p]] is a 11 chain structure with sequence from [http://en.wikipedia.org/wiki/ ], [http://en.wikipedia.org/wiki/African_clawed_frog African clawed frog] and [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=6irn 6irn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K1P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6K1P FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=BEF:BERYLLIUM+TRIFLUORIDE+ION'>BEF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=BEF:BERYLLIUM+TRIFLUORIDE+ION'>BEF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">XELAEV_18002543mg ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=8355 African clawed frog]), hist1h2aj, LOC494591, XELAEV_18003602mg ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=8355 African clawed frog]), ISW1, YBR245C, YBR1633 ([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=6k1p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k1p OCA], [http://pdbe.org/6k1p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6k1p RCSB], [http://www.ebi.ac.uk/pdbsum/6k1p PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6k1p 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=6k1p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k1p OCA], [http://pdbe.org/6k1p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6k1p RCSB], [http://www.ebi.ac.uk/pdbsum/6k1p PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6k1p ProSAT]</span></td></tr>
	</table>		</table>
Line 18:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 6k1p" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6k1p" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Histone 3D structures\|Histone 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: African clawed frog]]
		+	[[Category: Baker's yeast]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Chen, Z C]]		[[Category: Chen, Z C]]

OCA at 05:59, 29 May 2019

OCA — Wed, 29 May 2019 05:59:42 GMT

←Older revision		Revision as of 05:59, 29 May 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	The entry 6k1p is ~~ON HOLD~~	+	==The complex of ISWI-nucleosome in the ADP.BeF-bound state==
		+	<StructureSection load='6k1p' size='340' side='right'caption='[[6k1p]], [[Resolution\|resolution]] 3.87Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6k1p]] is a 11 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=6irn 6irn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K1P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6K1P FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=BEF:BERYLLIUM+TRIFLUORIDE+ION'>BEF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=6k1p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k1p OCA], [http://pdbe.org/6k1p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6k1p RCSB], [http://www.ebi.ac.uk/pdbsum/6k1p PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6k1p ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/H2B11_XENLA H2B11_XENLA]] Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling. [[http://www.uniprot.org/uniprot/ISW1_YEAST ISW1_YEAST]] Catalytic component of ISW1-type complexes, which act by remodeling the chromatin by catalyzing an ATP-dependent alteration in the structure of nucleosomal DNA. They are involved in coordinating transcriptional repression, activation and elongation phases. The ISW1A complex represses gene expression at initiation through specific positioning of a promoter proximal dinucleosome. The ISW1B complex acts within coding regions to control the amount of RNA polymerase II released into productive elongation and to coordinate elongation with termination and pre-mRNA processing.<ref>PMID:10090725</ref> <ref>PMID:11238381</ref> <ref>PMID:14622597</ref> <ref>PMID:12482963</ref> [[http://www.uniprot.org/uniprot/H4_XENLA H4_XENLA]] Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Chromatin remodelers are diverse enzymes, and different models have been proposed to explain how these proteins work. Here we report the 3.3 A-resolution cryogenic electron microscopy (cryo-EM) structures of Saccharomyces cerevisiae ISWI (ISW1) in complex with the nucleosome in adenosine diphosphate (ADP)-bound and ADP-BeFx-bound states. The data show that after nucleosome binding, ISW1 is activated by substantial rearrangement of the catalytic domains, with the regulatory AutoN domain packing the first RecA-like core and the NegC domain being disordered. The high-resolution structure reveals local DNA distortion and translocation induced by ISW1 in the ADP-bound state, which is essentially identical to that induced by the Snf2 chromatin remodeler, suggesting a common mechanism of DNA translocation. The histone core remains largely unperturbed, and prevention of histone distortion by crosslinking did not inhibit the activity of yeast ISW1 or its human homolog. Together, our findings suggest a general mechanism of chromatin remodeling involving local DNA distortion without notable histone deformation.

-	~~Authors: Yan~~, L~~.J.~~, Wu, H., Li, X~~.M.~~, Gao, N., Chen, Z.C.	+	Structures of the ISWI-nucleosome complex reveal a conserved mechanism of chromatin remodeling.,Yan L, Wu H, Li X, Gao N, Chen Z Nat Struct Mol Biol. 2019 Mar 13. pii: 10.1038/s41594-019-0199-9. doi:, 10.1038/s41594-019-0199-9. PMID:30872815<ref>PMID:30872815</ref>

-	~~Description: The complex~~ of ~~ISWI-nucleosome in~~ the ~~ADP~~.~~BeF~~-~~bound state~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
-	~~[[Category: Li, X.M~~]]	+	<div class="pdbe-citations 6k1p" style="background-color:#fffaf0;"></div>
-	[[Category: Chen, Z.C]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Chen, Z C]]
	[[Category: Gao, N]]		[[Category: Gao, N]]
-	[[Category: ~~Yan~~, ~~L.J~~]]	+	[[Category: Li, X M]]
	[[Category: Wu, H]]		[[Category: Wu, H]]
		+	[[Category: Yan, L J]]
		+	[[Category: Chromatin remodelling]]
		+	[[Category: Dna binding protein-dna complex]]

OCA: Protected "6k1p" [edit=sysop:move=sysop]

OCA — Wed, 22 May 2019 03:53:13 GMT

Protected "6k1p" [edit=sysop:move=sysop]

←Older revision

Revision as of 03:53, 22 May 2019

OCA: New page: '''Unreleased structure''' The entry 6k1p is ON HOLD Authors: Yan, L.J., Wu, H., Li, X.M., Gao, N., Chen, Z.C. Description: The complex of ISWI-nucleosome in the ADP.BeF-bound state [[...

OCA — Wed, 22 May 2019 03:53:11 GMT

New page: '''Unreleased structure''' The entry 6k1p is ON HOLD Authors: Yan, L.J., Wu, H., Li, X.M., Gao, N., Chen, Z.C. Description: The complex of ISWI-nucleosome in the ADP.BeF-bound state [[...

New page

'''Unreleased structure'''

The entry 6k1p is ON HOLD

Authors: Yan, L.J., Wu, H., Li, X.M., Gao, N., Chen, Z.C.

Description: The complex of ISWI-nucleosome in the ADP.BeF-bound state
[[Category: Unreleased Structures]]
[[Category: Li, X.M]]
[[Category: Chen, Z.C]]
[[Category: Gao, N]]
[[Category: Yan, L.J]]
[[Category: Wu, H]]