5h5y - Revision history

OCA at 09:15, 20 March 2024

OCA — Wed, 20 Mar 2024 09:15:06 GMT

←Older revision		Revision as of 09:15, 20 March 2024
Line 9:		Line 9:
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/A0A0D7C3R7_ECOLX A0A0D7C3R7_ECOLX]		[https://www.uniprot.org/uniprot/A0A0D7C3R7_ECOLX A0A0D7C3R7_ECOLX]
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The bacterial effector proteins SseK and NleB glycosylate host proteins on arginine residues, leading to reduced NF-kappaB-dependent responses to infection. Salmonella SseK1 and SseK2 are E. coli NleB1 orthologs that behave as NleB1-like GTs, although they differ in protein substrate specificity. Here we report that these enzymes are retaining glycosyltransferases composed of a helix-loop-helix (HLH) domain, a lid domain, and a catalytic domain. A conserved HEN motif (His-Glu-Asn) in the active site is important for enzyme catalysis and bacterial virulence. We observe differences between SseK1 and SseK2 in interactions with substrates and identify substrate residues that are critical for enzyme recognition. Long Molecular Dynamics simulations suggest that the HLH domain determines substrate specificity and the lid-domain regulates the opening of the active site. Overall, our data suggest a front-face SNi mechanism, explain differences in activities among these effectors, and have implications for future drug development against enteric pathogens.
-
-	Structural basis for arginine glycosylation of host substrates by bacterial effector proteins.,Park JB, Kim YH, Yoo Y, Kim J, Jun SH, Cho JW, El Qaidi S, Walpole S, Monaco S, Garcia-Garcia AA, Wu M, Hays MP, Hurtado-Guerrero R, Angulo J, Hardwidge PR, Shin JS, Cho HS Nat Commun. 2018 Oct 16;9(1):4283. doi: 10.1038/s41467-018-06680-6. PMID:30327479<ref>PMID:30327479</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 5h5y" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 07:24, 9 August 2023

OCA — Wed, 09 Aug 2023 07:24:35 GMT

←Older revision		Revision as of 07:24, 9 August 2023
Line 1:		Line 1:

	==Structure of Transferase mutant-C23S,C199S==		==Structure of Transferase mutant-C23S,C199S==
-	<StructureSection load='5h5y' size='340' side='right' caption='[[5h5y]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='5h5y' size='340' side='right'caption='[[5h5y]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5h5y]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_coli"_migula_1895 "bacillus~~ coli~~" migula 1895~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H5Y OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5H5Y FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5h5y]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H5Y OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5H5Y FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5h60\|5h60]], [[5h61\|5h61]], [[5h62\|5h62]], [[5h63\|5h63]]</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]] 2.3Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">ARC77_23750 ([http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=562 "Bacillus coli" Migula 1895])~~</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=5h5y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h5y OCA], [https://pdbe.org/5h5y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5h5y RCSB], [https://www.ebi.ac.uk/pdbsum/5h5y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5h5y 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=5h5y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h5y OCA], [~~http~~://pdbe.org/5h5y PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5h5y RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5h5y PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5h5y ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A0D7C3R7_ECOLX A0A0D7C3R7_ECOLX]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus~~ coli ~~migula 1895~~]]	+	[[Category: Escherichia coli]]
-	[[Category: ~~Kim, J~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Park,~~ J B]]	+	[[Category: Kim J]]
-	[[Category: ~~Yoo, Y~~]]	+	[[Category: Park JB]]
-	[[Category: ~~Transferase~~]]	+	[[Category: Yoo Y]]

OCA at 07:04, 31 October 2018

OCA — Wed, 31 Oct 2018 07:04:35 GMT

←Older revision		Revision as of 07:04, 31 October 2018
Line 8:		Line 8:
	<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=5h5y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h5y OCA], [http://pdbe.org/5h5y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h5y RCSB], [http://www.ebi.ac.uk/pdbsum/5h5y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h5y 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=5h5y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h5y OCA], [http://pdbe.org/5h5y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h5y RCSB], [http://www.ebi.ac.uk/pdbsum/5h5y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h5y ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The bacterial effector proteins SseK and NleB glycosylate host proteins on arginine residues, leading to reduced NF-kappaB-dependent responses to infection. Salmonella SseK1 and SseK2 are E. coli NleB1 orthologs that behave as NleB1-like GTs, although they differ in protein substrate specificity. Here we report that these enzymes are retaining glycosyltransferases composed of a helix-loop-helix (HLH) domain, a lid domain, and a catalytic domain. A conserved HEN motif (His-Glu-Asn) in the active site is important for enzyme catalysis and bacterial virulence. We observe differences between SseK1 and SseK2 in interactions with substrates and identify substrate residues that are critical for enzyme recognition. Long Molecular Dynamics simulations suggest that the HLH domain determines substrate specificity and the lid-domain regulates the opening of the active site. Overall, our data suggest a front-face SNi mechanism, explain differences in activities among these effectors, and have implications for future drug development against enteric pathogens.
		+
		+	Structural basis for arginine glycosylation of host substrates by bacterial effector proteins.,Park JB, Kim YH, Yoo Y, Kim J, Jun SH, Cho JW, El Qaidi S, Walpole S, Monaco S, Garcia-Garcia AA, Wu M, Hays MP, Hurtado-Guerrero R, Angulo J, Hardwidge PR, Shin JS, Cho HS Nat Commun. 2018 Oct 16;9(1):4283. doi: 10.1038/s41467-018-06680-6. PMID:30327479<ref>PMID:30327479</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5h5y" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 20:04, 19 September 2018

OCA — Wed, 19 Sep 2018 20:04:13 GMT

←Older revision		Revision as of 20:04, 19 September 2018
Line 3:		Line 3:
	<StructureSection load='5h5y' size='340' side='right' caption='[[5h5y]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='5h5y' size='340' side='right' caption='[[5h5y]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5h5y]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H5Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5H5Y FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5h5y]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H5Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5H5Y FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5h60\|5h60]], [[5h61\|5h61]], [[5h62\|5h62]], [[5h63\|5h63]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5h60\|5h60]], [[5h61\|5h61]], [[5h62\|5h62]], [[5h63\|5h63]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ARC77_23750 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=5h5y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h5y OCA], [http://pdbe.org/5h5y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h5y RCSB], [http://www.ebi.ac.uk/pdbsum/5h5y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h5y 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=5h5y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h5y OCA], [http://pdbe.org/5h5y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h5y RCSB], [http://www.ebi.ac.uk/pdbsum/5h5y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h5y ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus coli migula 1895]]
	[[Category: Kim, J]]		[[Category: Kim, J]]
	[[Category: Park, J B]]		[[Category: Park, J B]]
	[[Category: Yoo, Y]]		[[Category: Yoo, Y]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 08:23, 27 December 2017

OCA — Wed, 27 Dec 2017 08:23:45 GMT

←Older revision		Revision as of 08:23, 27 December 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5h5y ~~is ON HOLD until Paper Publication~~	+	==Structure of Transferase mutant-C23S,C199S==
-		+	<StructureSection load='5h5y' size='340' side='right' caption='[[5h5y]], [[Resolution\|resolution]] 2.30Å' scene=''>
-	~~Authors~~: ~~Park, J~~.B.~~, Yoo, Y~~., ~~Kim~~, J.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5h5y]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H5Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5H5Y FirstGlance]. <br>
-	~~Description~~: ~~Structure of Transferase mutant~~-~~C23S~~,~~C199S~~	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5h60\|5h60]], [[5h61\|5h61]], [[5h62\|5h62]], [[5h63\|5h63]]</td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	<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=5h5y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h5y OCA], [http://pdbe.org/5h5y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h5y RCSB], [http://www.ebi.ac.uk/pdbsum/5h5y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h5y ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
	[[Category: Kim, J]]		[[Category: Kim, J]]
		+	[[Category: Park, J B]]
	[[Category: Yoo, Y]]		[[Category: Yoo, Y]]
-	[[Category: ~~Park, J.B~~]]	+	[[Category: Transferase]]

OCA at 04:45, 20 December 2017

OCA — Wed, 20 Dec 2017 04:45:38 GMT

←Older revision		Revision as of 04:45, 20 December 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5h5y is ON HOLD	+	The entry 5h5y is ON HOLD until Paper Publication

	Authors: Park, J.B., Yoo, Y., Kim, J.		Authors: Park, J.B., Yoo, Y., Kim, J.

OCA at 05:52, 6 December 2017

OCA — Wed, 06 Dec 2017 05:52:34 GMT

←Older revision		Revision as of 05:52, 6 December 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5h5y is ON HOLD ~~until Paper Publication~~	+	The entry 5h5y is ON HOLD

	Authors: Park, J.B., Yoo, Y., Kim, J.		Authors: Park, J.B., Yoo, Y., Kim, J.

OCA at 04:51, 29 November 2017

OCA — Wed, 29 Nov 2017 04:51:58 GMT

←Older revision		Revision as of 04:51, 29 November 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5h5y is ON HOLD	+	The entry 5h5y is ON HOLD until Paper Publication

	Authors: Park, J.B., Yoo, Y., Kim, J.		Authors: Park, J.B., Yoo, Y., Kim, J.
Line 7:		Line 7:
	Description: Structure of Transferase mutant-C23S,C199S		Description: Structure of Transferase mutant-C23S,C199S
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Yoo, Y]]
	[[Category: Kim, J]]		[[Category: Kim, J]]
		+	[[Category: Yoo, Y]]
	[[Category: Park, J.B]]		[[Category: Park, J.B]]

OCA: Protected "5h5y" [edit=sysop:move=sysop]

OCA — Fri, 09 Dec 2016 13:46:51 GMT

Protected "5h5y" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:46, 9 December 2016

OCA: New page: '''Unreleased structure''' The entry 5h5y is ON HOLD Authors: Park, J.B., Yoo, Y., Kim, J. Description: Structure of Transferase mutant-C23S,C199S Category: Unreleased Structures [...

OCA — Fri, 09 Dec 2016 13:46:50 GMT

New page: '''Unreleased structure''' The entry 5h5y is ON HOLD Authors: Park, J.B., Yoo, Y., Kim, J. Description: Structure of Transferase mutant-C23S,C199S Category: Unreleased Structures [...

New page

'''Unreleased structure'''

The entry 5h5y is ON HOLD

Authors: Park, J.B., Yoo, Y., Kim, J.

Description: Structure of Transferase mutant-C23S,C199S
[[Category: Unreleased Structures]]
[[Category: Yoo, Y]]
[[Category: Kim, J]]
[[Category: Park, J.B]]