6apy - Revision history

OCA at 14:22, 4 October 2023

2023-10-04T14:22:46Z

← Older revision		Revision as of 14:22, 4 October 2023
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	==Scabin (W128Y) toxin from Streptomyces scabies==		==Scabin (W128Y) toxin from Streptomyces scabies==
	<StructureSection load='6apy' size='340' side='right' caption='[[6apy]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='6apy' size='340' side='right'caption='[[6apy]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6apy]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Strsw Strsw~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6APY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6APY FirstGlance]. <br>		<table><tr><td colspan='2'>[[6apy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_scabiei_87.22 Streptomyces scabiei 87.22]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6APY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6APY FirstGlance]. <br>
	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5daz\|5daz]], [[5ewk\|5ewk]], [[5ewy\|5ewy]]</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]] 1.5Å</td></tr>
	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">SCAB_27771 ([http://www.ncbi.nlm.nih~~.~~gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=~~5&~~id=680198 STRSW])~~</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=6apy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6apy OCA], [https://pdbe.org/6apy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6apy RCSB], [https://www.ebi.ac.uk/pdbsum/6apy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6apy 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=6apy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6apy OCA], [~~http~~://pdbe.org/6apy PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6apy RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6apy PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6apy ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/C9Z6T8_STRSW C9Z6T8_STRSW]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Strsw~~]]		[[Category: Large Structures]]
	[[Category: ~~Lidster, T~~]]		[[Category: Streptomyces scabiei 87 22]]
	[[Category: ~~Lyons, B~~]]		[[Category: Lidster T]]
	[[Category: ~~Merrill, A R~~]]		[[Category: Lyons B]]
	[[Category: ~~Bacterial toxin]]~~		[[Category: Merrill AR]]
	~~[[Category: Toxin]]~~
	~~[[Category: Transferase~~]]

OCA at 08:21, 17 January 2018

2018-01-17T08:21:42Z

← Older revision		Revision as of 08:21, 17 January 2018
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	<StructureSection load='6apy' size='340' side='right' caption='[[6apy]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='6apy' size='340' side='right' caption='[[6apy]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6apy]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6APY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6APY FirstGlance]. <br>		<table><tr><td colspan='2'>[[6apy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Strsw Strsw]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6APY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6APY FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5daz\|5daz]], [[5ewk\|5ewk]], [[5ewy\|5ewy]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5daz\|5daz]], [[5ewk\|5ewk]], [[5ewy\|5ewy]]</td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SCAB_27771 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=680198 STRSW])</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=6apy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6apy OCA], [http://pdbe.org/6apy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6apy RCSB], [http://www.ebi.ac.uk/pdbsum/6apy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6apy 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=6apy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6apy OCA], [http://pdbe.org/6apy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6apy RCSB], [http://www.ebi.ac.uk/pdbsum/6apy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6apy ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Strsw]]
	[[Category: Lidster, T]]		[[Category: Lidster, T]]
	[[Category: Lyons, B]]		[[Category: Lyons, B]]

OCA at 06:23, 20 December 2017

2017-12-20T06:23:09Z

← Older revision		Revision as of 06:23, 20 December 2017
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	~~'''Unreleased structure'''~~

	~~The entry~~ 6apy is ~~ON HOLD until Paper~~ Publication		==Scabin (W128Y) toxin from Streptomyces scabies==
			<StructureSection load='6apy' size='340' side='right' caption='[[6apy]], [[Resolution\|resolution]] 1.50Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[6apy]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6APY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6APY FirstGlance]. <br>
			</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5daz\|5daz]], [[5ewk\|5ewk]], [[5ewy\|5ewy]]</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=6apy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6apy OCA], [http://pdbe.org/6apy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6apy RCSB], [http://www.ebi.ac.uk/pdbsum/6apy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6apy ProSAT]</span></td></tr>
			</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Scabin was previously identified as a novel DNA-targeting mono-ADP-ribosyltransferase toxin from the plant pathogen 87.22 strain of Streptomyces scabies Scabin is a member of the Pierisin-like subgroup of mono-ADP-ribosyltransferase toxins, since it targets DNA. An in-depth characterization of both the glycohydrolase and transferase enzymatic activities of Scabin was conducted. Several protein variants were developed based on an initial Scabin.DNA molecular model. Consequently, three residues were deemed important for DNA binding and transferase activity. Trp128 and Trp155 are important for binding the DNA substrate and participate in the reaction mechanism whereas Tyr129 was shown to be important only for DNA binding, but was not involved in the reaction mechanism. Trp128 and Trp155 are both conserved within the Pierisin-like toxins, whereas Tyr129 is a unique substitution within the group. Scabin showed substrate specificity towards double-stranded DNA containing a single-base overhang, as a model for single-stranded nicked DNA. The crystal structure of Scabin bound to NADH - a competitive inhibitor of Scabin - was determined, providing important insights into the active-site structure and Michaelis complex of the enzyme. Based on these results, a novel DNA-binding motif is proposed for Scabin with substrate and the key residues that may participate in the Scabin.DNA complex are highlighted.

	~~Authors:~~ Lyons, B., Lidster, T., Merrill~~, A~~.R.		Characterization of the catalytic signature of Scabin toxin, a DNA-targeting ADP-ribosyltransferase.,Lyons B, Lugo MR, Carlin S, Lidster T, Merrill AR Biochem J. 2017 Dec 5. pii: BCJ20170818. doi: 10.1042/BCJ20170818. PMID:29208763<ref>PMID:29208763</ref>

	~~Description~~: ~~Scabin (W128Y) toxin from Streptomyces scabies~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	[[Category: ~~Unreleased Structures~~]]		</div>
			<div class="pdbe-citations 6apy" style="background-color:#fffaf0;"></div>
			== References ==
			<references/>
			__TOC__
			</StructureSection>
			[[Category: Lidster, T]]
	[[Category: Lyons, B]]		[[Category: Lyons, B]]
	[[Category: Merrill, A.R]]		[[Category: Merrill, A R]]
	[[Category: ~~Lidster, T~~]]		[[Category: Bacterial toxin]]
			[[Category: Toxin]]
			[[Category: Transferase]]

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

2017-09-27T16:39:44Z

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

← Older revision	Revision as of 16:39, 27 September 2017
(No difference)

OCA: New page: '''Unreleased structure''' The entry 6apy is ON HOLD until Paper Publication Authors: Lyons, B., Lidster, T., Merrill, A.R. Description: Scabin (W128Y) toxin from Streptomyces scabies ...

2017-09-27T16:39:43Z

New page: '''Unreleased structure''' The entry 6apy is ON HOLD until Paper Publication Authors: Lyons, B., Lidster, T., Merrill, A.R. Description: Scabin (W128Y) toxin from Streptomyces scabies ...

New page

'''Unreleased structure'''

The entry 6apy is ON HOLD until Paper Publication

Authors: Lyons, B., Lidster, T., Merrill, A.R.

Description: Scabin (W128Y) toxin from Streptomyces scabies
[[Category: Unreleased Structures]]
[[Category: Lyons, B]]
[[Category: Merrill, A.R]]
[[Category: Lidster, T]]