3pkj - Revision history

OCA at 09:55, 6 September 2023

OCA — Wed, 06 Sep 2023 09:55:58 GMT

←Older revision		Revision as of 09:55, 6 September 2023
Line 3:		Line 3:
	<StructureSection load='3pkj' size='340' side='right'caption='[[3pkj]], [[Resolution\|resolution]] 2.12Å' scene=''>		<StructureSection load='3pkj' size='340' side='right'caption='[[3pkj]], [[Resolution\|resolution]] 2.12Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3pkj]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PKJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PKJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3pkj]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PKJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PKJ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A2N:[(2R,3S,4R,5R)-4-(ACETYLAMINO)-3,5-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+DIHYDROGEN+DIPHOSPHATE'>A2N</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene>, <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]] 2.12Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3k35\|3k35]], [[3pki\|3pki]]</div></td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A2N:[(2R,3S,4R,5R)-4-(ACETYLAMINO)-3,5-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+DIHYDROGEN+DIPHOSPHATE'>A2N</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SIRT6, SIR2L6 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])~~</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=3pkj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pkj OCA], [https://pdbe.org/3pkj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3pkj RCSB], [https://www.ebi.ac.uk/pdbsum/3pkj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3pkj 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=3pkj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pkj OCA], [https://pdbe.org/3pkj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3pkj RCSB], [https://www.ebi.ac.uk/pdbsum/3pkj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3pkj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/SIR6_HUMAN SIR6_HUMAN]] NAD-dependent protein deacetylase. Has deacetylase activity towards histone H3K9Ac and H3K56Ac. Modulates acetylation of histone H3 in telomeric chromatin during the S-phase of the cell cycle. Deacetylates histone H3K9Ac at NF-kappa-B target promoters and may down-regulate the expression of a subset of NF-kappa-B target genes. Acts as a corepressor of the transcription factor HIF1A to control the expression of multiple glycolytic genes to regulate glucose homeostasis. Required for genomic stability. Regulates the production of TNF protein. Has a role in the regulation of life span (By similarity). Deacetylation of nucleosomes interferes with RELA binding to target DNA. May be required for the association of WRN with telomeres during S-phase and for normal telomere maintenance. Required for genomic stability. Required for normal IGF1 serum levels and normal glucose homeostasis. Modulates cellular senescence and apoptosis. On DNA damage, promotes DNA end resection via deacetylation of RBBP8. Has very weak deacetylase activity and can bind NAD(+) in the absence of acetylated substrate.<ref>PMID:18337721</ref> <ref>PMID:19135889</ref> <ref>PMID:19625767</ref> <ref>PMID:20829486</ref> <ref>PMID:21362626</ref>	+	[https://www.uniprot.org/uniprot/SIR6_HUMAN SIR6_HUMAN] NAD-dependent protein deacetylase. Has deacetylase activity towards histone H3K9Ac and H3K56Ac. Modulates acetylation of histone H3 in telomeric chromatin during the S-phase of the cell cycle. Deacetylates histone H3K9Ac at NF-kappa-B target promoters and may down-regulate the expression of a subset of NF-kappa-B target genes. Acts as a corepressor of the transcription factor HIF1A to control the expression of multiple glycolytic genes to regulate glucose homeostasis. Required for genomic stability. Regulates the production of TNF protein. Has a role in the regulation of life span (By similarity). Deacetylation of nucleosomes interferes with RELA binding to target DNA. May be required for the association of WRN with telomeres during S-phase and for normal telomere maintenance. Required for genomic stability. Required for normal IGF1 serum levels and normal glucose homeostasis. Modulates cellular senescence and apoptosis. On DNA damage, promotes DNA end resection via deacetylation of RBBP8. Has very weak deacetylase activity and can bind NAD(+) in the absence of acetylated substrate.<ref>PMID:18337721</ref> <ref>PMID:19135889</ref> <ref>PMID:19625767</ref> <ref>PMID:20829486</ref> <ref>PMID:21362626</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 27:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Arrowsmith~~, C H~~]]	+	[[Category: Arrowsmith CH]]
-	[[Category: Bountra, C]]	+	[[Category: Bountra C]]
-	[[Category: Dong, A]]	+	[[Category: Dong A]]
-	[[Category: Edwards~~, A M~~]]	+	[[Category: Edwards AM]]
-	[[Category: Loppnau, P]]	+	[[Category: Loppnau P]]
-	[[Category: Min, J]]	+	[[Category: Min J]]
-	[[Category: Pan~~, P W~~]]	+	[[Category: Pan PW]]
-	[[Category: Qiu, W]]	+	[[Category: Qiu W]]
-	[[Category: Ravichandran, M]]	+	[[Category: Ravichandran M]]
-	~~[[Category: Structural genomic~~]]	+	[[Category: Walker JR]]
-	[[Category: Walker~~, J R~~]]	+	[[Category: Wang J]]
-	[[Category: Wang, J]]	+	[[Category: Weigelt J]]
-	[[Category: Weigelt, J]]	+
-	~~[[Category: 2'-n-acetyl adp ribose]]~~	+
-	~~[[Category: Adp-ribosylation]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Rossmann fold]]~~	+
-	~~[[Category: Sgc]]~~	+
-	~~[[Category: Zn-binding domain~~]]	+

OCA at 08:43, 25 May 2022

OCA — Wed, 25 May 2022 08:43:19 GMT

←Older revision		Revision as of 08:43, 25 May 2022
Line 1:		Line 1:

	==Human SIRT6 crystal structure in complex with 2'-N-Acetyl ADP ribose==		==Human SIRT6 crystal structure in complex with 2'-N-Acetyl ADP ribose==
-	<StructureSection load='3pkj' size='340' side='right' caption='[[3pkj]], [[Resolution\|resolution]] 2.12Å' scene=''>	+	<StructureSection load='3pkj' size='340' side='right'caption='[[3pkj]], [[Resolution\|resolution]] 2.12Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3pkj]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PKJ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3PKJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3pkj]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PKJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PKJ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=A2N:[(2R,3S,4R,5R)-4-(ACETYLAMINO)-3,5-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+DIHYDROGEN+DIPHOSPHATE'>A2N</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene>, <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=A2N:[(2R,3S,4R,5R)-4-(ACETYLAMINO)-3,5-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+DIHYDROGEN+DIPHOSPHATE'>A2N</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene>, <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">[[3k35\|3k35]], [[3pki\|3pki]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3k35\|3k35]], [[3pki\|3pki]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SIRT6, SIR2L6 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SIRT6, SIR2L6 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=3pkj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pkj OCA], [~~http~~://pdbe.org/3pkj PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3pkj RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3pkj PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3pkj 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=3pkj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pkj OCA], [https://pdbe.org/3pkj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3pkj RCSB], [https://www.ebi.ac.uk/pdbsum/3pkj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3pkj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/SIR6_HUMAN SIR6_HUMAN]] NAD-dependent protein deacetylase. Has deacetylase activity towards histone H3K9Ac and H3K56Ac. Modulates acetylation of histone H3 in telomeric chromatin during the S-phase of the cell cycle. Deacetylates histone H3K9Ac at NF-kappa-B target promoters and may down-regulate the expression of a subset of NF-kappa-B target genes. Acts as a corepressor of the transcription factor HIF1A to control the expression of multiple glycolytic genes to regulate glucose homeostasis. Required for genomic stability. Regulates the production of TNF protein. Has a role in the regulation of life span (By similarity). Deacetylation of nucleosomes interferes with RELA binding to target DNA. May be required for the association of WRN with telomeres during S-phase and for normal telomere maintenance. Required for genomic stability. Required for normal IGF1 serum levels and normal glucose homeostasis. Modulates cellular senescence and apoptosis. On DNA damage, promotes DNA end resection via deacetylation of RBBP8. Has very weak deacetylase activity and can bind NAD(+) in the absence of acetylated substrate.<ref>PMID:18337721</ref> <ref>PMID:19135889</ref> <ref>PMID:19625767</ref> <ref>PMID:20829486</ref> <ref>PMID:21362626</ref>	+	[[https://www.uniprot.org/uniprot/SIR6_HUMAN SIR6_HUMAN]] NAD-dependent protein deacetylase. Has deacetylase activity towards histone H3K9Ac and H3K56Ac. Modulates acetylation of histone H3 in telomeric chromatin during the S-phase of the cell cycle. Deacetylates histone H3K9Ac at NF-kappa-B target promoters and may down-regulate the expression of a subset of NF-kappa-B target genes. Acts as a corepressor of the transcription factor HIF1A to control the expression of multiple glycolytic genes to regulate glucose homeostasis. Required for genomic stability. Regulates the production of TNF protein. Has a role in the regulation of life span (By similarity). Deacetylation of nucleosomes interferes with RELA binding to target DNA. May be required for the association of WRN with telomeres during S-phase and for normal telomere maintenance. Required for genomic stability. Required for normal IGF1 serum levels and normal glucose homeostasis. Modulates cellular senescence and apoptosis. On DNA damage, promotes DNA end resection via deacetylation of RBBP8. Has very weak deacetylase activity and can bind NAD(+) in the absence of acetylated substrate.<ref>PMID:18337721</ref> <ref>PMID:19135889</ref> <ref>PMID:19625767</ref> <ref>PMID:20829486</ref> <ref>PMID:21362626</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 20:
	</div>		</div>
	<div class="pdbe-citations 3pkj" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3pkj" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Histone deacetylase 3D structures\|Histone deacetylase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 25:		Line 28:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Arrowsmith, C H]]		[[Category: Arrowsmith, C H]]
	[[Category: Bountra, C]]		[[Category: Bountra, C]]

OCA at 09:01, 8 November 2017

OCA — Wed, 08 Nov 2017 09:01:26 GMT

←Older revision		Revision as of 09:01, 8 November 2017
Line 3:		Line 3:
	<StructureSection load='3pkj' size='340' side='right' caption='[[3pkj]], [[Resolution\|resolution]] 2.12Å' scene=''>		<StructureSection load='3pkj' size='340' side='right' caption='[[3pkj]], [[Resolution\|resolution]] 2.12Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3pkj]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PKJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PKJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3pkj]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PKJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PKJ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=A2N:[(2R,3S,4R,5R)-4-(ACETYLAMINO)-3,5-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+DIHYDROGEN+DIPHOSPHATE'>A2N</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene>, <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=A2N:[(2R,3S,4R,5R)-4-(ACETYLAMINO)-3,5-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+DIHYDROGEN+DIPHOSPHATE'>A2N</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene>, <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">[[3k35\|3k35]], [[3pki\|3pki]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3k35\|3k35]], [[3pki\|3pki]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SIRT6, SIR2L6 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=3pkj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pkj OCA], [http://pdbe.org/3pkj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3pkj RCSB], [http://www.ebi.ac.uk/pdbsum/3pkj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3pkj 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=3pkj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pkj OCA], [http://pdbe.org/3pkj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3pkj RCSB], [http://www.ebi.ac.uk/pdbsum/3pkj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3pkj ProSAT]</span></td></tr>
	</table>		</table>
Line 19:		Line 20:
	</div>		</div>
	<div class="pdbe-citations 3pkj" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3pkj" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Histone deacetylase\|Histone deacetylase]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Arrowsmith, C H]]		[[Category: Arrowsmith, C H]]
	[[Category: Bountra, C]]		[[Category: Bountra, C]]

OCA at 01:27, 10 March 2017

OCA — Fri, 10 Mar 2017 01:27:03 GMT

←Older revision		Revision as of 01:27, 10 March 2017
Line 19:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 3pkj" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3pkj" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Histone deacetylase\|Histone deacetylase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 11:18, 1 February 2017

OCA — Wed, 01 Feb 2017 11:18:13 GMT

←Older revision		Revision as of 11:18, 1 February 2017
Line 3:		Line 3:
	<StructureSection load='3pkj' size='340' side='right' caption='[[3pkj]], [[Resolution\|resolution]] 2.12Å' scene=''>		<StructureSection load='3pkj' size='340' side='right' caption='[[3pkj]], [[Resolution\|resolution]] 2.12Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3pkj]] is a 6 chain structure ~~with sequence from [http://en.wikipedia.org/wiki/Human Human]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PKJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PKJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3pkj]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PKJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PKJ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=A2N:[(2R,3S,4R,5R)-4-(ACETYLAMINO)-3,5-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+DIHYDROGEN+DIPHOSPHATE'>A2N</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene>, <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=A2N:[(2R,3S,4R,5R)-4-(ACETYLAMINO)-3,5-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+DIHYDROGEN+DIPHOSPHATE'>A2N</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene>, <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">[[3k35\|3k35]], [[3pki\|3pki]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3k35\|3k35]], [[3pki\|3pki]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SIRT6, SIR2L6 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=3pkj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pkj OCA], [http://pdbe.org/3pkj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3pkj RCSB], [http://www.ebi.ac.uk/pdbsum/3pkj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3pkj 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=3pkj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pkj OCA], [http://pdbe.org/3pkj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3pkj RCSB], [http://www.ebi.ac.uk/pdbsum/3pkj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3pkj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/SIR6_HUMAN SIR6_HUMAN]] NAD-dependent protein deacetylase. Has deacetylase activity towards histone H3K9Ac and H3K56Ac. Modulates acetylation of histone H3 in telomeric chromatin during the S-phase of the cell cycle. Deacetylates histone H3K9Ac at NF-kappa-B target promoters and may down-regulate the expression of a subset of NF-kappa-B target genes. Acts as a corepressor of the transcription factor HIF1A to control the expression of multiple glycolytic genes to regulate glucose homeostasis. Required for genomic stability. Regulates the production of TNF protein. Has a role in the regulation of life span (By similarity). Deacetylation of nucleosomes interferes with RELA binding to target DNA. May be required for the association of WRN with telomeres during S-phase and for normal telomere maintenance. Required for genomic stability. Required for normal IGF1 serum levels and normal glucose homeostasis. Modulates cellular senescence and apoptosis. On DNA damage, promotes DNA end resection via deacetylation of RBBP8. Has very weak deacetylase activity and can bind NAD(+) in the absence of acetylated substrate.<ref>PMID:18337721</ref> <ref>PMID:19135889</ref> <ref>PMID:19625767</ref> <ref>PMID:20829486</ref> <ref>PMID:21362626</ref>		[[http://www.uniprot.org/uniprot/SIR6_HUMAN SIR6_HUMAN]] NAD-dependent protein deacetylase. Has deacetylase activity towards histone H3K9Ac and H3K56Ac. Modulates acetylation of histone H3 in telomeric chromatin during the S-phase of the cell cycle. Deacetylates histone H3K9Ac at NF-kappa-B target promoters and may down-regulate the expression of a subset of NF-kappa-B target genes. Acts as a corepressor of the transcription factor HIF1A to control the expression of multiple glycolytic genes to regulate glucose homeostasis. Required for genomic stability. Regulates the production of TNF protein. Has a role in the regulation of life span (By similarity). Deacetylation of nucleosomes interferes with RELA binding to target DNA. May be required for the association of WRN with telomeres during S-phase and for normal telomere maintenance. Required for genomic stability. Required for normal IGF1 serum levels and normal glucose homeostasis. Modulates cellular senescence and apoptosis. On DNA damage, promotes DNA end resection via deacetylation of RBBP8. Has very weak deacetylase activity and can bind NAD(+) in the absence of acetylated substrate.<ref>PMID:18337721</ref> <ref>PMID:19135889</ref> <ref>PMID:19625767</ref> <ref>PMID:20829486</ref> <ref>PMID:21362626</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	SIRT6 is a member of the evolutionarily conserved sirtuin family of NAD(+)-dependent protein deacetylases and functions in genomic stability and transcriptional control of glucose metabolism. Early reports suggested that SIRT6 performs ADP-ribosylation, whereas more recent studies have suggested that SIRT6 functions mainly as a histone deacetylase. Thus, the molecular functions of SIRT6 remain uncertain. Here, we perform biochemical, kinetic, and structural studies to provide new mechanistic insight into the functions of SIRT6. Utilizing three different assays, we provide biochemical and kinetic evidence that SIRT6-dependent histone deacetylation produces O-acetyl-ADP-ribose but at a rate approximately 1,000 times slower than other highly active sirtuins. To understand the molecular basis for such low deacetylase activity, we solved the first crystal structures of this class IV sirtuin in complex with ADP-ribose and the non-hydrolyzable analog of O-acetyl-ADP-ribose, 2'-N-acetyl-ADP-ribose. The structures revealed unique features of human SIRT6, including a splayed zinc-binding domain and the absence of a helix bundle that in other sirtuin structures connects the zinc-binding motif and Rossmann fold domain. SIRT6 also lacks the conserved, highly flexible, NAD(+)-binding loop and instead contains a stable single helix. These differences led us to hypothesize that SIRT6, unlike all other studied sirtuins, would be able to bind NAD(+) in the absence of an acetylated substrate. Indeed, we found that SIRT6 binds NAD(+) with relatively high affinity (K(d) = 27 +/- 1 muM) in the absence of an acetylated substrate. Isothermal titration calorimetry and tryptophan fluorescence binding assays suggested that ADP-ribose and NAD(+) induce different structural perturbations and that NADH does not bind to SIRT6. Collectively, these new insights imply a unique activating mechanism and/or the possibility that SIRT6 could act as an NAD(+) metabolite sensor.

-	==~~See Also==~~	+	Structure and biochemical functions of SIRT6.,Pan PW, Feldman JL, Devries MK, Dong A, Edwards AM, Denu JM J Biol Chem. 2011 Apr 22;286(16):14575-87. Epub 2011 Mar 1. PMID:21362626<ref>PMID:21362626</ref>
-	*[[Histone deacetylase\|Histone deacetylase]]	+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 3pkj" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Human]]
	[[Category: Arrowsmith, C H]]		[[Category: Arrowsmith, C H]]
	[[Category: Bountra, C]]		[[Category: Bountra, C]]

OCA at 23:31, 5 August 2016

OCA — Fri, 05 Aug 2016 23:31:22 GMT

←Older revision		Revision as of 23:31, 5 August 2016
Line 1:		Line 1:
		+
	==Human SIRT6 crystal structure in complex with 2'-N-Acetyl ADP ribose==		==Human SIRT6 crystal structure in complex with 2'-N-Acetyl ADP ribose==
	<StructureSection load='3pkj' size='340' side='right' caption='[[3pkj]], [[Resolution\|resolution]] 2.12Å' scene=''>		<StructureSection load='3pkj' size='340' side='right' caption='[[3pkj]], [[Resolution\|resolution]] 2.12Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3pkj]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Homo_sapiens Homo sapiens~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PKJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PKJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3pkj]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PKJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PKJ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=A2N:[(2R,3S,4R,5R)-4-(ACETYLAMINO)-3,5-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+DIHYDROGEN+DIPHOSPHATE'>A2N</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene>, <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=A2N:[(2R,3S,4R,5R)-4-(ACETYLAMINO)-3,5-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+DIHYDROGEN+DIPHOSPHATE'>A2N</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene>, <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">[[3k35\|3k35]], [[3pki\|3pki]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3k35\|3k35]], [[3pki\|3pki]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SIRT6, SIR2L6 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 ~~Homo sapiens~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SIRT6, SIR2L6 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=3pkj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pkj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pkj RCSB], [http://www.ebi.ac.uk/pdbsum/3pkj 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=3pkj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pkj OCA], [http://pdbe.org/3pkj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3pkj RCSB], [http://www.ebi.ac.uk/pdbsum/3pkj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3pkj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/~~SIRT6_HUMAN SIRT6_HUMAN~~]] NAD-dependent protein deacetylase. Has deacetylase activity towards histone H3K9Ac and H3K56Ac. Modulates acetylation of histone H3 in telomeric chromatin during the S-phase of the cell cycle. Deacetylates histone H3K9Ac at NF-kappa-B target promoters and may down-regulate the expression of a subset of NF-kappa-B target genes. Acts as a corepressor of the transcription factor HIF1A to control the expression of multiple glycolytic genes to regulate glucose homeostasis. Required for genomic stability. Regulates the production of TNF protein. Has a role in the regulation of life span (By similarity). Deacetylation of nucleosomes interferes with RELA binding to target DNA. May be required for the association of WRN with telomeres during S-phase and for normal telomere maintenance. Required for genomic stability. Required for normal IGF1 serum levels and normal glucose homeostasis. Modulates cellular senescence and apoptosis. On DNA damage, promotes DNA end resection via deacetylation of RBBP8. Has very weak deacetylase activity and can bind NAD(+) in the absence of acetylated substrate.<ref>PMID:18337721</ref> <ref>PMID:19135889</ref> <ref>PMID:19625767</ref> <ref>PMID:20829486</ref> <ref>PMID:21362626</ref>	+	[[http://www.uniprot.org/uniprot/SIR6_HUMAN SIR6_HUMAN]] NAD-dependent protein deacetylase. Has deacetylase activity towards histone H3K9Ac and H3K56Ac. Modulates acetylation of histone H3 in telomeric chromatin during the S-phase of the cell cycle. Deacetylates histone H3K9Ac at NF-kappa-B target promoters and may down-regulate the expression of a subset of NF-kappa-B target genes. Acts as a corepressor of the transcription factor HIF1A to control the expression of multiple glycolytic genes to regulate glucose homeostasis. Required for genomic stability. Regulates the production of TNF protein. Has a role in the regulation of life span (By similarity). Deacetylation of nucleosomes interferes with RELA binding to target DNA. May be required for the association of WRN with telomeres during S-phase and for normal telomere maintenance. Required for genomic stability. Required for normal IGF1 serum levels and normal glucose homeostasis. Modulates cellular senescence and apoptosis. On DNA damage, promotes DNA end resection via deacetylation of RBBP8. Has very weak deacetylase activity and can bind NAD(+) in the absence of acetylated substrate.<ref>PMID:18337721</ref> <ref>PMID:19135889</ref> <ref>PMID:19625767</ref> <ref>PMID:20829486</ref> <ref>PMID:21362626</ref>
		+
		+	==See Also==
		+	*[[Histone deacetylase\|Histone deacetylase]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Arrowsmith, C H]]		[[Category: Arrowsmith, C H]]
	[[Category: Bountra, C]]		[[Category: Bountra, C]]

OCA at 06:48, 25 December 2014

OCA — Thu, 25 Dec 2014 06:48:36 GMT

←Older revision		Revision as of 06:48, 25 December 2014
Line 8:		Line 8:
	<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=3pkj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pkj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pkj RCSB], [http://www.ebi.ac.uk/pdbsum/3pkj 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=3pkj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pkj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pkj RCSB], [http://www.ebi.ac.uk/pdbsum/3pkj PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SIRT6_HUMAN SIRT6_HUMAN]] NAD-dependent protein deacetylase. Has deacetylase activity towards histone H3K9Ac and H3K56Ac. Modulates acetylation of histone H3 in telomeric chromatin during the S-phase of the cell cycle. Deacetylates histone H3K9Ac at NF-kappa-B target promoters and may down-regulate the expression of a subset of NF-kappa-B target genes. Acts as a corepressor of the transcription factor HIF1A to control the expression of multiple glycolytic genes to regulate glucose homeostasis. Required for genomic stability. Regulates the production of TNF protein. Has a role in the regulation of life span (By similarity). Deacetylation of nucleosomes interferes with RELA binding to target DNA. May be required for the association of WRN with telomeres during S-phase and for normal telomere maintenance. Required for genomic stability. Required for normal IGF1 serum levels and normal glucose homeostasis. Modulates cellular senescence and apoptosis. On DNA damage, promotes DNA end resection via deacetylation of RBBP8. Has very weak deacetylase activity and can bind NAD(+) in the absence of acetylated substrate.<ref>PMID:18337721</ref> <ref>PMID:19135889</ref> <ref>PMID:19625767</ref> <ref>PMID:20829486</ref> <ref>PMID:21362626</ref>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 11:11, 19 December 2014

OCA — Fri, 19 Dec 2014 11:11:22 GMT

←Older revision		Revision as of 11:11, 19 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3pkj\| PDB=3pkj \| SCENE= }}~~	+	==Human SIRT6 crystal structure in complex with 2'-N-Acetyl ADP ribose==
-	===Human SIRT6 crystal structure in complex with 2'-N-Acetyl ADP ribose===	+	<StructureSection load='3pkj' size='340' side='right' caption='[[3pkj]], [[Resolution\|resolution]] 2.12Å' scene=''>
-	~~{{ABSTRACT_PUBMED_021362626}}~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[3pkj]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PKJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PKJ FirstGlance]. <br>
-	==~~Function~~==	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=A2N:[(2R,3S,4R,5R)-4-(ACETYLAMINO)-3,5-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+DIHYDROGEN+DIPHOSPHATE'>A2N</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	[[http://~~www~~.~~uniprot~~.org/~~uniprot~~/~~SIRT6_HUMAN SIRT6_HUMAN]~~] ~~NAD-dependent protein deacetylase~~. ~~Has deacetylase activity towards histone H3K9Ac and H3K56Ac~~. ~~Modulates acetylation of histone H3 in telomeric chromatin during the S-phase of the cell cycle~~. ~~Deacetylates histone H3K9Ac at NF-kappa~~-~~B target promoters and may down-regulate the expression of a subset of NF-kappa-B target genes~~. ~~Acts as~~ a ~~corepressor of~~ the ~~transcription factor HIF1A to control the expression of multiple glycolytic genes to regulate glucose homeostasis~~. ~~Required for genomic stability~~. ~~Regulates the production of TNF protein~~. ~~Has a role in the regulation of life span (By similarity). Deacetylation of nucleosomes interferes with RELA binding to target DNA. May be required for the association of WRN with telomeres during S~~-~~phase and for normal telomere maintenance~~. ~~Required for genomic stability. Required for normal IGF1 serum levels and normal glucose homeostasis. Modulates cellular senescence and apoptosis~~. ~~On DNA damage~~, ~~promotes DNA end resection via deacetylation of RBBP8. Has very weak deacetylase activity and can bind NAD~~(+) ~~in the absence of acetylated substrate.~~<~~ref~~>~~PMID~~:~~18337721~~</~~ref~~> <~~ref~~>~~PMID~~:~~19135889~~</~~ref~~> <~~ref~~>~~PMID:19625767~~</~~ref~~> <~~ref~~>~~PMID~~:~~20829486~~</~~ref~~> <~~ref~~>~~PMID:21362626~~</~~ref~~>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3k35\|3k35]], [[3pki\|3pki]]</td></tr>
-		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SIRT6, SIR2L6 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>
-	==~~About this Structure==~~	+	<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=3pkj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pkj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pkj RCSB], [http://www.ebi.ac.uk/pdbsum/3pkj PDBsum]</span></td></tr>
-	[[~~3pkj~~]] ~~is a 6 chain structure with sequence from~~ [http://en.~~wikipedia~~.~~org~~/~~wiki~~/~~Homo_sapiens~~ Homo sapiens]. ~~Full crystallographic information is available from~~ [http://oca.weizmann.ac.il/oca-bin/~~ocashort~~?id=~~3PKJ~~ OCA].	+	</table>
-		+	__TOC__
-	=~~=Reference==~~	+	</StructureSection>
-	<~~ref group="xtra"~~>~~PMID:021362626~~</~~ref~~><~~references group="xtra"~~/><~~references~~/>	+
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Arrowsmith, C H.]]	+	[[Category: Arrowsmith, C H]]
-	[[Category: Bountra, C.]]	+	[[Category: Bountra, C]]
-	[[Category: Dong, A.]]	+	[[Category: Dong, A]]
-	[[Category: Edwards, A M.]]	+	[[Category: Edwards, A M]]
-	[[Category: Loppnau, P.]]	+	[[Category: Loppnau, P]]
-	[[Category: Min, J.]]	+	[[Category: Min, J]]
-	[[Category: Pan, P W.]]	+	[[Category: Pan, P W]]
-	[[Category: Qiu, W.]]	+	[[Category: Qiu, W]]
-	[[Category: Ravichandran, M.]]	+	[[Category: Ravichandran, M]]
-	[[Category: ~~SGC,~~ Structural ~~Genomics Consortium.~~]]	+	[[Category: Structural genomic]]
-	[[Category: Walker, J R.]]	+	[[Category: Walker, J R]]
-	[[Category: Wang, J.]]	+	[[Category: Wang, J]]
-	[[Category: Weigelt, J.]]	+	[[Category: Weigelt, J]]
	[[Category: 2'-n-acetyl adp ribose]]		[[Category: 2'-n-acetyl adp ribose]]
	[[Category: Adp-ribosylation]]		[[Category: Adp-ribosylation]]
Line 30:		Line 29:
	[[Category: Rossmann fold]]		[[Category: Rossmann fold]]
	[[Category: Sgc]]		[[Category: Sgc]]
-	[[Category: Structural genomic]]
-	[[Category: Structural genomics consortium]]
	[[Category: Zn-binding domain]]		[[Category: Zn-binding domain]]

OCA at 08:35, 8 May 2013

OCA — Wed, 08 May 2013 08:35:21 GMT

←Older revision		Revision as of 08:35, 8 May 2013
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-	[[Image:3pkj.jpg\|left\|200px]]
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	{{STRUCTURE_3pkj\| PDB=3pkj \| SCENE= }}		{{STRUCTURE_3pkj\| PDB=3pkj \| SCENE= }}
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	===Human SIRT6 crystal structure in complex with 2'-N-Acetyl ADP ribose===		===Human SIRT6 crystal structure in complex with 2'-N-Acetyl ADP ribose===
		+	{{ABSTRACT_PUBMED_021362626}}

		+	==Function==
		+	[[http://www.uniprot.org/uniprot/SIRT6_HUMAN SIRT6_HUMAN]] NAD-dependent protein deacetylase. Has deacetylase activity towards histone H3K9Ac and H3K56Ac. Modulates acetylation of histone H3 in telomeric chromatin during the S-phase of the cell cycle. Deacetylates histone H3K9Ac at NF-kappa-B target promoters and may down-regulate the expression of a subset of NF-kappa-B target genes. Acts as a corepressor of the transcription factor HIF1A to control the expression of multiple glycolytic genes to regulate glucose homeostasis. Required for genomic stability. Regulates the production of TNF protein. Has a role in the regulation of life span (By similarity). Deacetylation of nucleosomes interferes with RELA binding to target DNA. May be required for the association of WRN with telomeres during S-phase and for normal telomere maintenance. Required for genomic stability. Required for normal IGF1 serum levels and normal glucose homeostasis. Modulates cellular senescence and apoptosis. On DNA damage, promotes DNA end resection via deacetylation of RBBP8. Has very weak deacetylase activity and can bind NAD(+) in the absence of acetylated substrate.<ref>PMID:18337721</ref> <ref>PMID:19135889</ref> <ref>PMID:19625767</ref> <ref>PMID:20829486</ref> <ref>PMID:21362626</ref>

	==About this Structure==		==About this Structure==
	[[3pkj]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PKJ OCA].		[[3pkj]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PKJ OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:021362626</ref><references group="xtra"/><references/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Arrowsmith, C H.]]		[[Category: Arrowsmith, C H.]]
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	[[Category: Wang, J.]]		[[Category: Wang, J.]]
	[[Category: Weigelt, J.]]		[[Category: Weigelt, J.]]
		+	[[Category: 2'-n-acetyl adp ribose]]
		+	[[Category: Adp-ribosylation]]
		+	[[Category: Hydrolase]]
		+	[[Category: Rossmann fold]]
		+	[[Category: Sgc]]
		+	[[Category: Structural genomic]]
		+	[[Category: Structural genomics consortium]]
		+	[[Category: Zn-binding domain]]

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

OCA — Wed, 26 Jan 2011 13:04:42 GMT

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

←Older revision

Revision as of 13:04, 26 January 2011