4d70 - Revision history

OCA at 12:21, 20 December 2023

2023-12-20T12:21:51Z

←Older revision		Revision as of 12:21, 20 December 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4d70]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D70 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4D70 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4d70]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D70 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4D70 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=4d70 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d70 OCA], [https://pdbe.org/4d70 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4d70 RCSB], [https://www.ebi.ac.uk/pdbsum/4d70 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4d70 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]] 1.99Å</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=4d70 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d70 OCA], [https://pdbe.org/4d70 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4d70 RCSB], [https://www.ebi.ac.uk/pdbsum/4d70 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4d70 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/Q8XNW0_CLOPE Q8XNW0_CLOPE]]	+	[https://www.uniprot.org/uniprot/Q8XNW0_CLOPE Q8XNW0_CLOPE]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 07:50, 14 September 2022

2022-09-14T07:50:21Z

←Older revision		Revision as of 07:50, 14 September 2022
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	<StructureSection load='4d70' size='340' side='right'caption='[[4d70]], [[Resolution\|resolution]] 1.99Å' scene=''>		<StructureSection load='4d70' size='340' side='right'caption='[[4d70]], [[Resolution\|resolution]] 1.99Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4d70]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_perfringens"_veillon_and_zuber_1898 "bacillus~~ perfringens~~" veillon and zuber 1898~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D70 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4D70 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4d70]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D70 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4D70 FirstGlance]. <br>
-	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sortase_A Sortase A], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.22.70 3.4.22.70] </span></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=4d70 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d70 OCA], [https://pdbe.org/4d70 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4d70 RCSB], [https://www.ebi.ac.uk/pdbsum/4d70 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4d70 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=4d70 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d70 OCA], [~~http~~://pdbe.org/4d70 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4d70 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4d70 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4d70 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[[https://www.uniprot.org/uniprot/Q8XNW0_CLOPE Q8XNW0_CLOPE]]
	<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: ~~Bacillus~~ perfringens ~~veillon and zuber 1898~~]]	+	[[Category: Clostridium perfringens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Sortase A]]~~	+	[[Category: Adams TE]]
-	[[Category: Adams~~, T E~~]]	+	[[Category: Nuttall SD]]
-	[[Category: Nuttall~~, S D~~]]	+	[[Category: Peat TS]]
-	[[Category: Peat~~, T S~~]]	+	[[Category: Seabrook S]]
-	[[Category: Seabrook, S]]	+	[[Category: Suryadinata R]]
-	[[Category: Suryadinata, R]]	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 08:12, 27 March 2019

2019-03-27T08:12:23Z

←Older revision		Revision as of 08:12, 27 March 2019
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	==Structural, biophysical and biochemical analyses of a Clostridium perfringens Sortase D5 transpeptidase==		==Structural, biophysical and biochemical analyses of a Clostridium perfringens Sortase D5 transpeptidase==
-	<StructureSection load='4d70' size='340' side='right' caption='[[4d70]], [[Resolution\|resolution]] 1.99Å' scene=''>	+	<StructureSection load='4d70' size='340' side='right'caption='[[4d70]], [[Resolution\|resolution]] 1.99Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4d70]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D70 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4D70 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4d70]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_perfringens"_veillon_and_zuber_1898 "bacillus perfringens" veillon and zuber 1898]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D70 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4D70 FirstGlance]. <br>
	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sortase_A Sortase A], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.22.70 3.4.22.70] </span></td></tr>		</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sortase_A Sortase A], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.22.70 3.4.22.70] </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=4d70 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d70 OCA], [http://pdbe.org/4d70 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4d70 RCSB], [http://www.ebi.ac.uk/pdbsum/4d70 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4d70 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=4d70 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d70 OCA], [http://pdbe.org/4d70 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4d70 RCSB], [http://www.ebi.ac.uk/pdbsum/4d70 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4d70 ProSAT]</span></td></tr>
Line 20:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus perfringens veillon and zuber 1898]]
		+	[[Category: Large Structures]]
	[[Category: Sortase A]]		[[Category: Sortase A]]
	[[Category: Adams, T E]]		[[Category: Adams, T E]]

OCA at 13:27, 19 April 2017

2017-04-19T13:27:47Z

←Older revision		Revision as of 13:27, 19 April 2017
Line 1:		Line 1:
		+
	==Structural, biophysical and biochemical analyses of a Clostridium perfringens Sortase D5 transpeptidase==		==Structural, biophysical and biochemical analyses of a Clostridium perfringens Sortase D5 transpeptidase==
	<StructureSection load='4d70' size='340' side='right' caption='[[4d70]], [[Resolution\|resolution]] 1.99Å' scene=''>		<StructureSection load='4d70' size='340' side='right' caption='[[4d70]], [[Resolution\|resolution]] 1.99Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[4d70]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D70 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4D70 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4d70]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D70 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4D70 FirstGlance]. <br>
	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sortase_A Sortase A], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.22.70 3.4.22.70] </span></td></tr>		</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sortase_A Sortase A], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.22.70 3.4.22.70] </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=4d70 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d70 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4d70 RCSB], [http://www.ebi.ac.uk/pdbsum/4d70 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=4d70 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d70 OCA], [http://pdbe.org/4d70 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4d70 RCSB], [http://www.ebi.ac.uk/pdbsum/4d70 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4d70 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 14:		Line 15:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4d70" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 13:18, 15 July 2015

2015-07-15T13:18:22Z

←Older revision		Revision as of 13:18, 15 July 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Structural, biophysical and biochemical analyses of a Clostridium perfringens Sortase D5 transpeptidase==
		+	<StructureSection load='4d70' size='340' side='right' caption='[[4d70]], [[Resolution\|resolution]] 1.99Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4d70]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D70 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4D70 FirstGlance]. <br>
		+	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sortase_A Sortase A], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.22.70 3.4.22.70] </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=4d70 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d70 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4d70 RCSB], [http://www.ebi.ac.uk/pdbsum/4d70 PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The assembly and anchorage of various pathogenic proteins on the surface of Gram-positive bacteria is mediated by the sortase family of enzymes. These cysteine transpeptidases catalyze a unique sorting signal motif located at the C-terminus of their target substrate and promote the covalent attachment of these proteins onto an amino nucleophile located on another protein or on the bacterial cell wall. Each of the six distinct classes of sortases displays a unique biological role, with sequential activation of multiple sortases often observed in many Gram-positive bacteria to decorate their peptidoglycans. Less is known about the members of the class D family of sortases (SrtD), but they have a suggested role in spore formation in an oxygen-limiting environment. Here, the crystal structure of the SrtD enzyme from Clostridium perfringens was determined at 1.99 A resolution. Comparative analysis of the C. perfringens SrtD structure reveals the typical eight-stranded beta-barrel fold observed in all other known sortases, along with the conserved catalytic triad consisting of cysteine, histidine and arginine residues. Biochemical approaches further reveal the specifics of the SrtD catalytic activity in vitro, with a significant preference for the LPQTGS sorting motif. Additionally, the catalytic activity of SrtD is most efficient at 316 K and can be further improved in the presence of magnesium cations. Since C. perfringens spores are heat-resistant and lead to foodborne illnesses, characterization of the spore-promoting sortase SrtD may lead to the development of new antimicrobial agents.

-	~~The entry 4d70 is ON HOLD until Paper Publication~~	+	Structural and biochemical analyses of a Clostridium perfringens sortase D transpeptidase.,Suryadinata R, Seabrook SA, Adams TE, Nuttall SD, Peat TS Acta Crystallogr D Biol Crystallogr. 2015 Jul 1;71(Pt 7):1505-13. doi:, 10.1107/S1399004715009219. Epub 2015 Jun 30. PMID:26143922<ref>PMID:26143922</ref>

-	~~Authors: Suryadinata~~, R.~~, Seabrook,~~ S., Adams, T.E., Nuttall, S.D~~., Peat, T.S.~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description: Structural, biophysical and biochemical analyses of a Clostridium perfringens Sortase D5 transpeptidase~~	+	== References ==
-	[[Category: ~~Unreleased Structures~~]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Sortase A]]
		+	[[Category: Adams, T E]]
		+	[[Category: Nuttall, S D]]
		+	[[Category: Peat, T S]]
	[[Category: Seabrook, S]]		[[Category: Seabrook, S]]
-	[[Category: Peat, T.S]]
-	[[Category: Nuttall, S.D]]
	[[Category: Suryadinata, R]]		[[Category: Suryadinata, R]]
-	[[Category: ~~Adams, T.E~~]]	+	[[Category: Hydrolase]]

OCA at 11:59, 28 January 2015

2015-01-28T11:59:27Z

←Older revision		Revision as of 11:59, 28 January 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4d70 is ON HOLD	+	The entry 4d70 is ON HOLD until Paper Publication

	Authors: Suryadinata, R., Seabrook, S., Adams, T.E., Nuttall, S.D., Peat, T.S.		Authors: Suryadinata, R., Seabrook, S., Adams, T.E., Nuttall, S.D., Peat, T.S.

OCA at 13:54, 24 December 2014

2014-12-24T13:54:59Z

←Older revision		Revision as of 13:54, 24 December 2014
Line 6:		Line 6:

	Description: Structural, biophysical and biochemical analyses of a Clostridium perfringens Sortase D5 transpeptidase		Description: Structural, biophysical and biochemical analyses of a Clostridium perfringens Sortase D5 transpeptidase
		+	[[Category: Unreleased Structures]]
		+	[[Category: Seabrook, S]]
		+	[[Category: Peat, T.S]]
		+	[[Category: Nuttall, S.D]]
		+	[[Category: Suryadinata, R]]
		+	[[Category: Adams, T.E]]

OCA: Protected "4d70" [edit=sysop:move=sysop]

2014-11-26T06:27:23Z

Protected "4d70" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:27, 26 November 2014

OCA: New page: '''Unreleased structure''' The entry 4d70 is ON HOLD Authors: Suryadinata, R., Seabrook, S., Adams, T.E., Nuttall, S.D., Peat, T.S. Description: Structural, biophysical and biochemical...

2014-11-26T06:27:22Z

New page: '''Unreleased structure''' The entry 4d70 is ON HOLD Authors: Suryadinata, R., Seabrook, S., Adams, T.E., Nuttall, S.D., Peat, T.S. Description: Structural, biophysical and biochemical...

New page

'''Unreleased structure'''

The entry 4d70 is ON HOLD

Authors: Suryadinata, R., Seabrook, S., Adams, T.E., Nuttall, S.D., Peat, T.S.

Description: Structural, biophysical and biochemical analyses of a Clostridium perfringens Sortase D5 transpeptidase