5ao4 - Revision history

OCA at 11:13, 10 January 2024

OCA — Wed, 10 Jan 2024 11:13:54 GMT

←Older revision		Revision as of 11:13, 10 January 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5ao4]] is a 4 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=5AO4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5AO4 FirstGlance]. <br>		<table><tr><td colspan='2'>[[5ao4]] is a 4 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=5AO4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5AO4 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 3.7Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene></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=5ao4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ao4 OCA], [https://pdbe.org/5ao4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ao4 RCSB], [https://www.ebi.ac.uk/pdbsum/5ao4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ao4 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=5ao4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ao4 OCA], [https://pdbe.org/5ao4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ao4 RCSB], [https://www.ebi.ac.uk/pdbsum/5ao4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ao4 ProSAT]</span></td></tr>
	</table>		</table>

OCA at 06:19, 31 May 2023

OCA — Wed, 31 May 2023 06:19:38 GMT

←Older revision		Revision as of 06:19, 31 May 2023
Line 3:		Line 3:
	<StructureSection load='5ao4' size='340' side='right'caption='[[5ao4]], [[Resolution\|resolution]] 3.70Å' scene=''>		<StructureSection load='5ao4' size='340' side='right'caption='[[5ao4]], [[Resolution\|resolution]] 3.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ao4]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AO4 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5AO4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ao4]] is a 4 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=5AO4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5AO4 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5ao0\|5ao0]], [[5ao1\|5ao1]], [[5ao2\|5ao2]], [[5ao3\|5ao3]]~~</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=5ao4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ao4 OCA], [https://pdbe.org/5ao4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ao4 RCSB], [https://www.ebi.ac.uk/pdbsum/5ao4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ao4 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=5ao4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ao4 OCA], [~~http~~://pdbe.org/5ao4 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5ao4 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5ao4 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5ao4 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Disease ==		== Disease ==
-	[~~[http~~://www.uniprot.org/uniprot/SAMH1_HUMAN SAMH1_HUMAN]] Defects in SAMHD1 are the cause of Aicardi-Goutieres syndrome type 5 (AGS5) [MIM:[~~http~~://omim.org/entry/612952 612952]]. A form of Aicardi-Goutieres syndrome, a genetically heterogeneous disease characterized by cerebral atrophy, leukoencephalopathy, intracranial calcifications, chronic cerebrospinal fluid (CSF) lymphocytosis, increased CSF alpha-interferon, and negative serologic investigations for common prenatal infection. Clinical features as thrombocytopenia, hepatosplenomegaly and elevated hepatic transaminases along with intermittent fever may erroneously suggest an infective process. Severe neurological dysfunctions manifest in infancy as progressive microcephaly, spasticity, dystonic posturing and profound psychomotor retardation. Death often occurs in early childhood.<ref>PMID:19525956</ref> <ref>PMID:20842748</ref> Defects in SAMHD1 are the cause of chilblain lupus type 2 (CHBL2) [MIM:[~~http~~://omim.org/entry/614415 614415]]. A rare cutaneous form of lupus erythematosus. Affected individuals present with painful bluish-red papular or nodular lesions of the skin in acral locations precipitated by cold and wet exposure at temperatures less than 10 degrees centigrade.<ref>PMID:21204240</ref>	+	[https://www.uniprot.org/uniprot/SAMH1_HUMAN SAMH1_HUMAN] Defects in SAMHD1 are the cause of Aicardi-Goutieres syndrome type 5 (AGS5) [MIM:[https://omim.org/entry/612952 612952]. A form of Aicardi-Goutieres syndrome, a genetically heterogeneous disease characterized by cerebral atrophy, leukoencephalopathy, intracranial calcifications, chronic cerebrospinal fluid (CSF) lymphocytosis, increased CSF alpha-interferon, and negative serologic investigations for common prenatal infection. Clinical features as thrombocytopenia, hepatosplenomegaly and elevated hepatic transaminases along with intermittent fever may erroneously suggest an infective process. Severe neurological dysfunctions manifest in infancy as progressive microcephaly, spasticity, dystonic posturing and profound psychomotor retardation. Death often occurs in early childhood.<ref>PMID:19525956</ref> <ref>PMID:20842748</ref> Defects in SAMHD1 are the cause of chilblain lupus type 2 (CHBL2) [MIM:[https://omim.org/entry/614415 614415]. A rare cutaneous form of lupus erythematosus. Affected individuals present with painful bluish-red papular or nodular lesions of the skin in acral locations precipitated by cold and wet exposure at temperatures less than 10 degrees centigrade.<ref>PMID:21204240</ref>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/SAMH1_HUMAN SAMH1_HUMAN]] Putative nuclease involved in innate immune response by acting as a negative regulator of the cell-intrinsic antiviral response. May play a role in mediating proinflammatory responses to TNF-alpha signaling.<ref>PMID:18546154</ref> <ref>PMID:19525956</ref>	+	[https://www.uniprot.org/uniprot/SAMH1_HUMAN SAMH1_HUMAN] Putative nuclease involved in innate immune response by acting as a negative regulator of the cell-intrinsic antiviral response. May play a role in mediating proinflammatory responses to TNF-alpha signaling.<ref>PMID:18546154</ref> <ref>PMID:19525956</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 25:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Arnold~~, L H~~]]	+	[[Category: Arnold LH]]
-	[[Category: Schwefel, D]]	+	[[Category: Schwefel D]]
-	[[Category: Taylor~~, I A]]~~	+	[[Category: Taylor IA]]
-	~~[[Category: Deoxynucleoside triphosphate triphosphohydrolase]]~~	+
-	~~[[Category: Hiv restriction factor]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 07:10, 10 July 2019

OCA — Wed, 10 Jul 2019 07:10:53 GMT

←Older revision		Revision as of 07:10, 10 July 2019
Line 1:		Line 1:

	==Crystal structure of in vitro phosphorylated human SAMHD1 (amino acid residues 115-626) bound to GTP==		==Crystal structure of in vitro phosphorylated human SAMHD1 (amino acid residues 115-626) bound to GTP==
-	<StructureSection load='5ao4' size='340' side='right' caption='[[5ao4]], [[Resolution\|resolution]] 3.70Å' scene=''>	+	<StructureSection load='5ao4' size='340' side='right'caption='[[5ao4]], [[Resolution\|resolution]] 3.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5ao4]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AO4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5AO4 FirstGlance]. <br>		<table><tr><td colspan='2'>[[5ao4]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AO4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5AO4 FirstGlance]. <br>
Line 25:		Line 25:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Arnold, L H]]		[[Category: Arnold, L H]]
	[[Category: Schwefel, D]]		[[Category: Schwefel, D]]

OCA at 06:24, 6 October 2017

OCA — Fri, 06 Oct 2017 06:24:44 GMT

←Older revision		Revision as of 06:24, 6 October 2017
Line 1:		Line 1:
		+
	==Crystal structure of in vitro phosphorylated human SAMHD1 (amino acid residues 115-626) bound to GTP==		==Crystal structure of in vitro phosphorylated human SAMHD1 (amino acid residues 115-626) bound to GTP==
	<StructureSection load='5ao4' size='340' side='right' caption='[[5ao4]], [[Resolution\|resolution]] 3.70Å' scene=''>		<StructureSection load='5ao4' size='340' side='right' caption='[[5ao4]], [[Resolution\|resolution]] 3.70Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5ao0\|5ao0]], [[5ao1\|5ao1]], [[5ao2\|5ao2]], [[5ao3\|5ao3]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5ao0\|5ao0]], [[5ao1\|5ao1]], [[5ao2\|5ao2]], [[5ao3\|5ao3]]</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=5ao4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ao4 OCA], [http://pdbe.org/5ao4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ao4 RCSB], [http://www.ebi.ac.uk/pdbsum/5ao4 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=5ao4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ao4 OCA], [http://pdbe.org/5ao4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ao4 RCSB], [http://www.ebi.ac.uk/pdbsum/5ao4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ao4 ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==

OCA at 03:51, 16 October 2015

OCA — Fri, 16 Oct 2015 03:51:25 GMT

←Older revision		Revision as of 03:51, 16 October 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Crystal structure of in vitro phosphorylated human SAMHD1 (amino acid residues 115-626) bound to GTP==
		+	<StructureSection load='5ao4' size='340' side='right' caption='[[5ao4]], [[Resolution\|resolution]] 3.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5ao4]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AO4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5AO4 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5ao0\|5ao0]], [[5ao1\|5ao1]], [[5ao2\|5ao2]], [[5ao3\|5ao3]]</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=5ao4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ao4 OCA], [http://pdbe.org/5ao4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ao4 RCSB], [http://www.ebi.ac.uk/pdbsum/5ao4 PDBsum]</span></td></tr>
		+	</table>
		+	== Disease ==
		+	[[http://www.uniprot.org/uniprot/SAMH1_HUMAN SAMH1_HUMAN]] Defects in SAMHD1 are the cause of Aicardi-Goutieres syndrome type 5 (AGS5) [MIM:[http://omim.org/entry/612952 612952]]. A form of Aicardi-Goutieres syndrome, a genetically heterogeneous disease characterized by cerebral atrophy, leukoencephalopathy, intracranial calcifications, chronic cerebrospinal fluid (CSF) lymphocytosis, increased CSF alpha-interferon, and negative serologic investigations for common prenatal infection. Clinical features as thrombocytopenia, hepatosplenomegaly and elevated hepatic transaminases along with intermittent fever may erroneously suggest an infective process. Severe neurological dysfunctions manifest in infancy as progressive microcephaly, spasticity, dystonic posturing and profound psychomotor retardation. Death often occurs in early childhood.<ref>PMID:19525956</ref> <ref>PMID:20842748</ref> Defects in SAMHD1 are the cause of chilblain lupus type 2 (CHBL2) [MIM:[http://omim.org/entry/614415 614415]]. A rare cutaneous form of lupus erythematosus. Affected individuals present with painful bluish-red papular or nodular lesions of the skin in acral locations precipitated by cold and wet exposure at temperatures less than 10 degrees centigrade.<ref>PMID:21204240</ref>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SAMH1_HUMAN SAMH1_HUMAN]] Putative nuclease involved in innate immune response by acting as a negative regulator of the cell-intrinsic antiviral response. May play a role in mediating proinflammatory responses to TNF-alpha signaling.<ref>PMID:18546154</ref> <ref>PMID:19525956</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	SAMHD1 restricts HIV-1 infection of myeloid-lineage and resting CD4+ T-cells. Most likely this occurs through deoxynucleoside triphosphate triphosphohydrolase activity that reduces cellular dNTP to a level where reverse transcriptase cannot function, although alternative mechanisms have been proposed recently. Here, we present combined structural and virological data demonstrating that in addition to allosteric activation and triphosphohydrolase activity, restriction correlates with the capacity of SAMHD1 to form "long-lived" enzymatically competent tetramers. Tetramer disruption invariably abolishes restriction but has varied effects on in vitro triphosphohydrolase activity. SAMHD1 phosphorylation also ablates restriction and tetramer formation but without affecting triphosphohydrolase steady-state kinetics. However phospho-SAMHD1 is unable to catalyse dNTP turnover under conditions of nucleotide depletion. Based on our findings we propose a model for phosphorylation-dependent regulation of SAMHD1 activity where dephosphorylation switches housekeeping SAMHD1 found in cycling cells to a high-activity stable tetrameric form that depletes and maintains low levels of dNTPs in differentiated cells.

-	~~The entry 5ao4 is ON HOLD until Paper Publication~~	+	Phospho-dependent Regulation of SAMHD1 Oligomerisation Couples Catalysis and Restriction.,Arnold LH, Groom HC, Kunzelmann S, Schwefel D, Caswell SJ, Ordonez P, Mann MC, Rueschenbaum S, Goldstone DC, Pennell S, Howell SA, Stoye JP, Webb M, Taylor IA, Bishop KN PLoS Pathog. 2015 Oct 2;11(10):e1005194. doi: 10.1371/journal.ppat.1005194., eCollection 2015 Oct. PMID:26431200<ref>PMID:26431200</ref>

-	~~Authors: Arnold~~, L.H.~~, Schwefel, D., Taylor, I.A~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description: Crystal structure of in vitro phosphorylated human SAMHD1 (amino acid residues 115~~-~~626) bound to GTP~~	+	<div class="pdbe-citations 5ao4" style="background-color:#fffaf0;"></div>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	== References ==
-	[[Category: ~~Taylor~~, ~~I.A~~]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Arnold, L H]]
	[[Category: Schwefel, D]]		[[Category: Schwefel, D]]
-	[[Category: ~~Arnold~~, ~~L.H~~]]	+	[[Category: Taylor, I A]]
		+	[[Category: Deoxynucleoside triphosphate triphosphohydrolase]]
		+	[[Category: Hiv restriction factor]]
		+	[[Category: Hydrolase]]

OCA: Protected "5ao4" [edit=sysop:move=sysop]

OCA — Wed, 30 Sep 2015 11:15:36 GMT

Protected "5ao4" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:15, 30 September 2015

OCA: New page: '''Unreleased structure''' The entry 5ao4 is ON HOLD until Paper Publication Authors: Arnold, L.H., Schwefel, D., Taylor, I.A. Description: Crystal structure of in vitro phosphorylated...

OCA — Wed, 30 Sep 2015 11:15:35 GMT

New page: '''Unreleased structure''' The entry 5ao4 is ON HOLD until Paper Publication Authors: Arnold, L.H., Schwefel, D., Taylor, I.A. Description: Crystal structure of in vitro phosphorylated...

New page

'''Unreleased structure'''

The entry 5ao4 is ON HOLD until Paper Publication

Authors: Arnold, L.H., Schwefel, D., Taylor, I.A.

Description: Crystal structure of in vitro phosphorylated human SAMHD1 (amino acid residues 115-626) bound to GTP
[[Category: Unreleased Structures]]
[[Category: Taylor, I.A]]
[[Category: Schwefel, D]]
[[Category: Arnold, L.H]]