5k9a - Revision history

OCA at 09:55, 27 September 2023

OCA — Wed, 27 Sep 2023 09:55:45 GMT

←Older revision		Revision as of 09:55, 27 September 2023
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	<StructureSection load='5k9a' size='340' side='right'caption='[[5k9a]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='5k9a' size='340' side='right'caption='[[5k9a]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5k9a]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Cordi Cordi~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5K9A OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5K9A FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5k9a]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Corynebacterium_diphtheriae_NCTC_13129 Corynebacterium diphtheriae NCTC 13129]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5K9A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5K9A FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=SO4:SULFATE+ION'>SO4</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]] 2.1Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~DIP2012 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=257309 CORDI])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=5k9a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5k9a OCA], [~~http~~://pdbe.org/5k9a PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5k9a RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5k9a PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5k9a 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=5k9a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5k9a OCA], [https://pdbe.org/5k9a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5k9a RCSB], [https://www.ebi.ac.uk/pdbsum/5k9a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5k9a ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q6NF82_CORDI Q6NF82_CORDI]
	<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: ~~Cordi~~]]	+	[[Category: Corynebacterium diphtheriae NCTC 13129]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Anderson~~, W F]]~~	+	[[Category: Anderson WF]]
-	~~[[Category: Structural genomic~~]]	+	[[Category: Huang I-H]]
-	[[Category: Huang, I H]]	+	[[Category: Joachimiak A]]
-	[[Category: Joachimiak, A]]	+	[[Category: Ma X]]
-	[[Category: Ma, X]]	+	[[Category: Osipiuk J]]
-	[[Category: Osipiuk, J]]	+	[[Category: Ton-That H]]
-	[[Category: Ton-That, H]]	+
-	~~[[Category: Csgid]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Idp58949]]~~	+
-	~~[[Category: Sortase~~]]	+

OCA at 12:09, 25 December 2019

OCA — Wed, 25 Dec 2019 12:09:10 GMT

←Older revision		Revision as of 12:09, 25 December 2019
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	<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=5k9a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5k9a OCA], [http://pdbe.org/5k9a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5k9a RCSB], [http://www.ebi.ac.uk/pdbsum/5k9a PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5k9a 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=5k9a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5k9a OCA], [http://pdbe.org/5k9a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5k9a RCSB], [http://www.ebi.ac.uk/pdbsum/5k9a PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5k9a ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Covalently cross-linked pilus polymers displayed on the cell surface of Gram-positive bacteria are assembled by class C sortase enzymes. These pilus-specific transpeptidases located on the bacterial membrane catalyze a two-step protein ligation reaction, first cleaving the LPXTG motif of one pilin protomer to form an acyl-enzyme intermediate and then joining the terminal Thr to the nucleophilic Lys residue residing within the pilin motif of another pilin protomer. To date, the determinants of class C enzymes that uniquely enable them to construct pili remain unknown. Here, informed by high-resolution crystal structures of corynebacterial pilus-specific sortase (SrtA) and utilizing a structural variant of the enzyme (SrtA(2M)), whose catalytic pocket has been unmasked by activating mutations, we successfully reconstituted in vitro polymerization of the cognate major pilin (SpaA). Mass spectrometry, electron microscopy, and biochemical experiments authenticated that SrtA(2M) synthesizes pilus fibers with correct Lys-Thr isopeptide bonds linking individual pilins via a thioacyl intermediate. Structural modeling of the SpaA-SrtA-SpaA polymerization intermediate depicts SrtA(2M) sandwiched between the N- and C-terminal domains of SpaA harboring the reactive pilin and LPXTG motifs, respectively. Remarkably, the model uncovered a conserved TP(Y/L)XIN(S/T)H signature sequence following the catalytic Cys, in which the alanine substitutions abrogated cross-linking activity but not cleavage of LPXTG. These insights and our evidence that SrtA(2M) can terminate pilus polymerization by joining the terminal pilin SpaB to SpaA and catalyze ligation of isolated SpaA domains in vitro provide a facile and versatile platform for protein engineering and bio-conjugation that has major implications for biotechnology.
		+
		+	In vitro reconstitution of sortase-catalyzed pilus polymerization reveals structural elements involved in pilin cross-linking.,Chang C, Amer BR, Osipiuk J, McConnell SA, Huang IH, Hsieh V, Fu J, Nguyen HH, Muroski J, Flores E, Ogorzalek Loo RR, Loo JA, Putkey JA, Joachimiak A, Das A, Clubb RT, Ton-That H Proc Natl Acad Sci U S A. 2018 Jun 12;115(24):E5477-E5486. doi:, 10.1073/pnas.1800954115. Epub 2018 May 29. PMID:29844180<ref>PMID:29844180</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5k9a" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 16:26, 11 December 2019

OCA — Wed, 11 Dec 2019 16:26:12 GMT

←Older revision		Revision as of 16:26, 11 December 2019
Line 1:		Line 1:

	==Sortase A from Corynebacterium diphtheriae==		==Sortase A from Corynebacterium diphtheriae==
-	<StructureSection load='5k9a' size='340' side='right' caption='[[5k9a]], [[Resolution\|resolution]] 2.10Å' scene=''>	+	<StructureSection load='5k9a' size='340' side='right'caption='[[5k9a]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5k9a]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Cordi Cordi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5K9A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5K9A FirstGlance]. <br>		<table><tr><td colspan='2'>[[5k9a]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Cordi Cordi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5K9A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5K9A FirstGlance]. <br>
Line 11:		Line 11:
	</StructureSection>		</StructureSection>
	[[Category: Cordi]]		[[Category: Cordi]]
		+	[[Category: Large Structures]]
	[[Category: Anderson, W F]]		[[Category: Anderson, W F]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]

OCA at 05:46, 30 May 2018

OCA — Wed, 30 May 2018 05:46:25 GMT

←Older revision		Revision as of 05:46, 30 May 2018
Line 3:		Line 3:
	<StructureSection load='5k9a' size='340' side='right' caption='[[5k9a]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='5k9a' size='340' side='right' caption='[[5k9a]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5k9a]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5K9A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5K9A FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5k9a]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Cordi Cordi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5K9A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5K9A FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DIP2012 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=257309 CORDI])</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=5k9a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5k9a OCA], [http://pdbe.org/5k9a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5k9a RCSB], [http://www.ebi.ac.uk/pdbsum/5k9a PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5k9a 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=5k9a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5k9a OCA], [http://pdbe.org/5k9a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5k9a RCSB], [http://www.ebi.ac.uk/pdbsum/5k9a PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5k9a ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Cordi]]
	[[Category: Anderson, W F]]		[[Category: Anderson, W F]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]

OCA at 07:28, 6 October 2017

OCA — Fri, 06 Oct 2017 07:28:58 GMT

←Older revision		Revision as of 07:28, 6 October 2017
Line 5:		Line 5:
	<table><tr><td colspan='2'>[[5k9a]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5K9A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5K9A FirstGlance]. <br>		<table><tr><td colspan='2'>[[5k9a]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5K9A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5K9A FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=5k9a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5k9a OCA], [http://pdbe.org/5k9a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5k9a RCSB], [http://www.ebi.ac.uk/pdbsum/5k9a 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=5k9a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5k9a OCA], [http://pdbe.org/5k9a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5k9a RCSB], [http://www.ebi.ac.uk/pdbsum/5k9a PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5k9a ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__

OCA: Protected "5k9a" [edit=sysop:move=sysop]

OCA — Mon, 20 Jun 2016 22:29:00 GMT

Protected "5k9a" [edit=sysop:move=sysop]

←Older revision

Revision as of 22:29, 20 June 2016

OCA: New page: ==Sortase A from Corynebacterium diphtheriae== == Structural high...

OCA — Mon, 20 Jun 2016 22:28:58 GMT

New page: ==Sortase A from Corynebacterium diphtheriae== <StructureSection load='5k9a' size='340' side='right' caption='5k9a, resolution 2.10Å' scene=''> == Structural high...

New page

==Sortase A from Corynebacterium diphtheriae==
<StructureSection load='5k9a' size='340' side='right' caption='[[5k9a]], [[Resolution|resolution]] 2.10Å' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[5k9a]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5K9A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5K9A FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=5k9a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5k9a OCA], [http://pdbe.org/5k9a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5k9a RCSB], [http://www.ebi.ac.uk/pdbsum/5k9a PDBsum]</span></td></tr>
</table>
__TOC__
</StructureSection>
[[Category: Anderson, W F]]
[[Category: Structural genomic]]
[[Category: Huang, I H]]
[[Category: Joachimiak, A]]
[[Category: Ma, X]]
[[Category: Osipiuk, J]]
[[Category: Ton-That, H]]
[[Category: Csgid]]
[[Category: Hydrolase]]
[[Category: Idp58949]]
[[Category: Sortase]]