7nsa - Revision history

OCA at 12:39, 1 February 2024

OCA — Thu, 01 Feb 2024 12:39:03 GMT

←Older revision		Revision as of 12:39, 1 February 2024
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	<StructureSection load='7nsa' size='340' side='right'caption='[[7nsa]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='7nsa' size='340' side='right'caption='[[7nsa]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7nsa]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Sulac Sulac~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7NSA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7NSA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7nsa]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Sulfolobus_acidocaldarius_DSM_639 Sulfolobus acidocaldarius DSM 639]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7NSA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7NSA FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=POP:PYROPHOSPHATE+2-'>POP</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]] 1.95Å</td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Saci_0718 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=330779 SULAC])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=POP:PYROPHOSPHATE+2-'>POP</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=7nsa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7nsa OCA], [https://pdbe.org/7nsa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7nsa RCSB], [https://www.ebi.ac.uk/pdbsum/7nsa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7nsa 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=7nsa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7nsa OCA], [https://pdbe.org/7nsa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7nsa RCSB], [https://www.ebi.ac.uk/pdbsum/7nsa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7nsa ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q4JAT2_SULAC Q4JAT2_SULAC]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Sulac~~]]	+	[[Category: Sulfolobus acidocaldarius DSM 639]]
-	[[Category: Banerjee, A]]	+	[[Category: Banerjee A]]
-	[[Category: Essen, L O]]	+	[[Category: Essen L-O]]
-	[[Category: Vogt~~, M S]]~~	+	[[Category: Vogt MS]]
-	~~[[Category: Cyth]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Pyrophosphate]]~~	+
-	~~[[Category: Ttm~~]]	+

OCA at 03:51, 2 July 2021

OCA — Fri, 02 Jul 2021 03:51:58 GMT

←Older revision		Revision as of 03:51, 2 July 2021
Line 1:		Line 1:

	==Triphosphate tunnel metalloenzyme from Sulfolobus acidocaldarius in complex with pyrophosphate and calcium==		==Triphosphate tunnel metalloenzyme from Sulfolobus acidocaldarius in complex with pyrophosphate and calcium==
-	<StructureSection load='7nsa' size='340' side='right'caption='[[7nsa]]' scene=''>	+	<StructureSection load='7nsa' size='340' side='right'caption='[[7nsa]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7NSA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7NSA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7nsa]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Sulac Sulac]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7NSA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7NSA FirstGlance]. <br>
-	</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=7nsa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7nsa OCA], [https://pdbe.org/7nsa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7nsa RCSB], [https://www.ebi.ac.uk/pdbsum/7nsa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7nsa ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=POP:PYROPHOSPHATE+2-'>POP</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Saci_0718 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=330779 SULAC])</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=7nsa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7nsa OCA], [https://pdbe.org/7nsa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7nsa RCSB], [https://www.ebi.ac.uk/pdbsum/7nsa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7nsa ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	CYTH proteins make up a large superfamily that is conserved in all three domains of life. These enzymes have a triphosphate tunnel metalloenzyme (TTM) fold, which typically results in phosphatase functions, e.g. RNA triphosphatase, inorganic polyphosphatase or thiamine triphosphatase. Some CYTH orthologs cyclize nucleotide triphosphates to 3',5'-cyclic nucleotides. So far, archaeal CYTH proteins have been annotated as adenylyl cyclases, although experimental evidence to support these annotations is lacking. To address this gap, we characterized a CYTH ortholog, SaTTM, from the crenarchaeote Sulfolobus acidocaldarius. Our in silico studies derived ten major subclasses within the CYTH family implying a close relationship between these archaeal CYTH enzymes and class IV adenylyl cyclases. However, initial biochemical characterization reveals inability of SaTTM to produce any cyclic nucleotides. Instead, our structural and functional analyses show a classical TTM behavior, i.e. triphosphatase activity, where pyrophosphate causes product inhibition. The Ca(2+)-inhibited Michaelis complex indicates a two-metal ion reaction mechanism analogous to other TTMs. Co-crystal structures of SaTTM further reveal conformational dynamics in SaTTM that suggest feedback inhibition in TTMs due to tunnel closure in the product state. These structural insights combined with further sequence-similarity network based in silico analyses provide a firm molecular basis for distinguishing CYTH orthologs with phosphatase activities from class IV adenylyl cyclases.
		+
		+	The archaeal triphosphate tunnel metalloenzyme SaTTM defines structural determinants for the diverse activities in the CYTH protein family.,Vogt MS, Ngouoko Nguepbeu RR, Mohr MKF, Albers SV, Essen LO, Banerjee A J Biol Chem. 2021 May 21:100820. doi: 10.1016/j.jbc.2021.100820. PMID:34029589<ref>PMID:34029589</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7nsa" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Banerjee A]]	+	[[Category: Sulac]]
-	[[Category: Essen L-O]]	+	[[Category: Banerjee, A]]
-	[[Category: Vogt MS]]	+	[[Category: Essen, L O]]
		+	[[Category: Vogt, M S]]
		+	[[Category: Cyth]]
		+	[[Category: Hydrolase]]
		+	[[Category: Pyrophosphate]]
		+	[[Category: Ttm]]

OCA at 14:36, 2 June 2021

OCA — Wed, 02 Jun 2021 14:36:52 GMT

←Older revision		Revision as of 14:36, 2 June 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 7nsa ~~is ON HOLD until Paper Publication~~	+	==Triphosphate tunnel metalloenzyme from Sulfolobus acidocaldarius in complex with pyrophosphate and calcium==
-		+	<StructureSection load='7nsa' size='340' side='right'caption='[[7nsa]]' scene=''>
-	~~Authors~~: ~~Vogt~~, M.S., ~~Essen~~, L.-O., ~~Banerjee~~, A.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7NSA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7NSA FirstGlance]. <br>
-	~~Description: Triphosphate tunnel metalloenzyme from Sulfolobus acidocaldarius in complex with pyrophosphate and calcium~~	+	</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=7nsa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7nsa OCA], [https://pdbe.org/7nsa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7nsa RCSB], [https://www.ebi.ac.uk/pdbsum/7nsa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7nsa ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: Banerjee, A]]	+	__TOC__
-	[[Category: ~~Vogt, M.S~~]]	+	</StructureSection>
-	[[Category: ~~Essen, L.-O~~]]	+	[[Category: Large Structures]]
		+	[[Category: Banerjee A]]
		+	[[Category: Essen L-O]]
		+	[[Category: Vogt MS]]

OCA: Protected "7nsa" [edit=sysop:move=sysop]

OCA — Wed, 17 Mar 2021 05:33:48 GMT

Protected "7nsa" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:33, 17 March 2021

OCA: New page: '''Unreleased structure''' The entry 7nsa is ON HOLD until Paper Publication Authors: Vogt, M.S., Essen, L.-O., Banerjee, A. Description: Triphosphate tunnel metalloenzyme from Sulfolo...

OCA — Wed, 17 Mar 2021 05:33:47 GMT

New page: '''Unreleased structure''' The entry 7nsa is ON HOLD until Paper Publication Authors: Vogt, M.S., Essen, L.-O., Banerjee, A. Description: Triphosphate tunnel metalloenzyme from Sulfolo...

New page

'''Unreleased structure'''

The entry 7nsa is ON HOLD until Paper Publication

Authors: Vogt, M.S., Essen, L.-O., Banerjee, A.

Description: Triphosphate tunnel metalloenzyme from Sulfolobus acidocaldarius in complex with pyrophosphate and calcium
[[Category: Unreleased Structures]]
[[Category: Banerjee, A]]
[[Category: Vogt, M.S]]
[[Category: Essen, L.-O]]