5daz - Revision history

OCA at 08:44, 27 September 2023

2023-09-27T08:44:56Z

←Older revision		Revision as of 08:44, 27 September 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5daz]] 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=5DAZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5DAZ FirstGlance]. <br>		<table><tr><td colspan='2'>[[5daz]] 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=5DAZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5DAZ 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=5daz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5daz OCA], [https://pdbe.org/5daz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5daz RCSB], [https://www.ebi.ac.uk/pdbsum/5daz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5daz ProSAT]</span></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]] 1.45Å</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=5daz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5daz OCA], [https://pdbe.org/5daz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5daz RCSB], [https://www.ebi.ac.uk/pdbsum/5daz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5daz ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 10:28, 21 June 2023

2023-06-21T10:28:47Z

←Older revision		Revision as of 10:28, 21 June 2023
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	<StructureSection load='5daz' size='340' side='right'caption='[[5daz]], [[Resolution\|resolution]] 1.45Å' scene=''>		<StructureSection load='5daz' size='340' side='right'caption='[[5daz]], [[Resolution\|resolution]] 1.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5daz]] 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=5DAZ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5DAZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5daz]] 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=5DAZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5DAZ FirstGlance]. <br>
-	</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>	+	</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=5daz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5daz OCA], [https://pdbe.org/5daz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5daz RCSB], [https://www.ebi.ac.uk/pdbsum/5daz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5daz 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=5daz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5daz OCA], [~~http~~://pdbe.org/5daz PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5daz RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5daz PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5daz 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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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Strsw~~]]	+	[[Category: Streptomyces scabiei 87 22]]
-	[[Category: Dutta, D]]	+	[[Category: Dutta D]]
-	[[Category: Lanoue, J]]	+	[[Category: Lanoue J]]
-	[[Category: Merrill~~, A R]]~~	+	[[Category: Merrill AR]]
-	~~[[Category: Apo-enzyme]]~~	+
-	~~[[Category: Mono-adp-ribosyltransferase]]~~	+
-	~~[[Category: Nad-binding protein]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 08:00, 8 January 2020

2020-01-08T08:00:37Z

←Older revision		Revision as of 08:00, 8 January 2020
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	==Crystal structure of Scabin, a mono-ADP-ribosyltransferase from Streptomyces scabies==		==Crystal structure of Scabin, a mono-ADP-ribosyltransferase from Streptomyces scabies==
-	<StructureSection load='5daz' size='340' side='right' caption='[[5daz]], [[Resolution\|resolution]] 1.45Å' scene=''>	+	<StructureSection load='5daz' size='340' side='right'caption='[[5daz]], [[Resolution\|resolution]] 1.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5daz]] 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=5DAZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5DAZ FirstGlance]. <br>		<table><tr><td colspan='2'>[[5daz]] 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=5DAZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5DAZ FirstGlance]. <br>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Strsw]]		[[Category: Strsw]]
	[[Category: Dutta, D]]		[[Category: Dutta, D]]

OCA at 09:51, 22 November 2017

2017-11-22T09:51:31Z

←Older revision		Revision as of 09:51, 22 November 2017
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	<StructureSection load='5daz' size='340' side='right' caption='[[5daz]], [[Resolution\|resolution]] 1.45Å' scene=''>		<StructureSection load='5daz' size='340' side='right' caption='[[5daz]], [[Resolution\|resolution]] 1.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5daz]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DAZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5DAZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5daz]] 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=5DAZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5DAZ FirstGlance]. <br>
-	</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=5daz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5daz OCA], [http://pdbe.org/5daz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5daz RCSB], [http://www.ebi.ac.uk/pdbsum/5daz PDBsum]</span></td></tr>	+	</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=5daz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5daz OCA], [http://pdbe.org/5daz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5daz RCSB], [http://www.ebi.ac.uk/pdbsum/5daz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5daz ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Strsw]]
	[[Category: Dutta, D]]		[[Category: Dutta, D]]
	[[Category: Lanoue, J]]		[[Category: Lanoue, J]]

OCA at 17:34, 10 May 2016

2016-05-10T17:34:51Z

←Older revision		Revision as of 17:34, 10 May 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5daz is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of Scabin, a mono-ADP-ribosyltransferase from Streptomyces scabies==
		+	<StructureSection load='5daz' size='340' side='right' caption='[[5daz]], [[Resolution\|resolution]] 1.45Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5daz]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DAZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5DAZ FirstGlance]. <br>
		+	</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=5daz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5daz OCA], [http://pdbe.org/5daz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5daz RCSB], [http://www.ebi.ac.uk/pdbsum/5daz PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	A bioinformatics strategy was used to identify Scabin, a novel DNA-targeting enzyme from the plant pathogen 87.22 strain of Streptomyces scabies. Scabin shares nearly 40% sequence identity with the Pierisin family of mono-ADP-ribosyltransferase toxins. Scabin was purified to homogeneity as a 22-kDa single-domain enzyme and was shown to possess high NAD+-glycohydrolase (KM(NAD) = 68 +/- 3 microM; kcat = 94 +/- 2 min-1) activity with an R-S-Q-X-E motif; it was also shown to target deoxyguanosine and showed sigmoidal enzyme kinetics (K0.5(deoxyguanosine) = 302 +/- 12 microM; kcat = 14 min-1). Mass spectrometry analysis revealed that Scabin labels the exocyclic amino group on guanine bases in either single-stranded or double-stranded DNA. Several small molecule inhibitors were identified and the most potent compounds were found to inhibit the enzyme activity with Ki values ranging from 3 to 24 microM. PJ34, a well-known inhibitor of poly-ADP-ribosyltransferases, was shown to be the most potent inhibitor of Scabin. Scabin was crystallized and it represents the first structure of a DNA-targeting mono-ADP-ribosyltransferase enzyme; the structures of the apo form (1.45A) and with two inhibitors (P6-E, 1.4A; PJ34, 1.6A) were solved. These structures are also the first high-resolution models of the Pierisin subgroup of the mono-ADP-ribosyltransferase toxin family. A model of Scabin with its DNA substrate is also proposed.

-	~~Authors: Dutta~~, D., ~~Lanoue~~, J., ~~Merrill~~, A.R.	+	Scabin, a novel DNA-acting ADP-ribosyltransferase from Streptomyces scabies.,Lyons B, Ravulapalli R, Lanoue J, Lugo MR, Dutta D, Carlin S, Merrill AR J Biol Chem. 2016 Mar 21. pii: jbc.M115.707653. PMID:27002155<ref>PMID:27002155</ref>

-	~~Description:~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Lanoue, J]]~~	+	<div class="pdbe-citations 5daz" style="background-color:#fffaf0;"></div>
-	~~[[Category: Merrill, A.R]]~~	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Dutta, D]]		[[Category: Dutta, D]]
		+	[[Category: Lanoue, J]]
		+	[[Category: Merrill, A R]]
		+	[[Category: Apo-enzyme]]
		+	[[Category: Mono-adp-ribosyltransferase]]
		+	[[Category: Nad-binding protein]]
		+	[[Category: Transferase]]

OCA at 01:47, 1 December 2015

2015-12-01T01:47:11Z

←Older revision		Revision as of 01:47, 1 December 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5daz is ON HOLD	+	The entry 5daz is ON HOLD until Paper Publication

	Authors: Dutta, D., Lanoue, J., Merrill, A.R.		Authors: Dutta, D., Lanoue, J., Merrill, A.R.

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

2015-08-26T12:41:35Z

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

←Older revision

Revision as of 12:41, 26 August 2015

OCA: New page: '''Unreleased structure''' The entry 5daz is ON HOLD Authors: Dutta, D., Lanoue, J., Merrill, A.R. Description: Category: Unreleased Structures Category: Lanoue, J [[Category:...

2015-08-26T12:41:34Z

New page: '''Unreleased structure''' The entry 5daz is ON HOLD Authors: Dutta, D., Lanoue, J., Merrill, A.R. Description: Category: Unreleased Structures Category: Lanoue, J [[Category:...

New page

'''Unreleased structure'''

The entry 5daz is ON HOLD

Authors: Dutta, D., Lanoue, J., Merrill, A.R.

Description:
[[Category: Unreleased Structures]]
[[Category: Lanoue, J]]
[[Category: Merrill, A.R]]
[[Category: Dutta, D]]