5tsp - Revision history

OCA at 16:50, 8 November 2023

OCA — Wed, 08 Nov 2023 16:50:37 GMT

←Older revision		Revision as of 16:50, 8 November 2023
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	<StructureSection load='5tsp' size='340' side='right'caption='[[5tsp]], [[Resolution\|resolution]] 1.24Å' scene=''>		<StructureSection load='5tsp' size='340' side='right'caption='[[5tsp]], [[Resolution\|resolution]] 1.24Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5tsp]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Clop1 Clop1~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TSP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5TSP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5tsp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Clostridium_perfringens_ATCC_13124 Clostridium perfringens ATCC 13124]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TSP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5TSP FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>~~, ~~<scene name='pdbligand=NHE:2-~~[~~N-CYCLOHEXYLAMINO~~]~~ETHANE+SULFONIC+ACID'>NHE</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]] 1.24Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~nanI ([http~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=195103 CLOP1~~])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5tsp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tsp OCA], [~~http~~://pdbe.org/5tsp PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5tsp RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5tsp PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5tsp 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=5tsp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tsp OCA], [https://pdbe.org/5tsp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5tsp RCSB], [https://www.ebi.ac.uk/pdbsum/5tsp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5tsp ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A0H2YQR1_CLOP1 A0A0H2YQR1_CLOP1]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Clop1~~]]	+	[[Category: Clostridium perfringens ATCC 13124]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: An~~, J Y~~]]	+	[[Category: An JY]]
-	[[Category: Eom~~, S H~~]]	+	[[Category: Eom SH]]
-	[[Category: Jin~~, M S~~]]	+	[[Category: Jin MS]]
-	[[Category: Kang~~, J Y~~]]	+	[[Category: Kang JY]]
-	[[Category: Lee, J G]]	+	[[Category: Lee J-G]]
-	[[Category: Lee, Y]]	+	[[Category: Lee Y]]
-	[[Category: Park~~, K H~~]]	+	[[Category: Park KH]]
-	[[Category: Park~~, K R~~]]	+	[[Category: Park KR]]
-	[[Category: Ryu~~, Y B~~]]	+	[[Category: Ryu YB]]
-	[[Category: Youn, H S]]	+	[[Category: Youn H-S]]
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Neuraminidase~~]]	+

OCA at 12:19, 23 September 2020

OCA — Wed, 23 Sep 2020 12:19:12 GMT

←Older revision		Revision as of 12:19, 23 September 2020
Line 1:		Line 1:

	==Crystal structure of the catalytic domain of Clostridium perfringens neuraminidase (NanI) in complex with a CHES==		==Crystal structure of the catalytic domain of Clostridium perfringens neuraminidase (NanI) in complex with a CHES==
-	<StructureSection load='5tsp' size='340' side='right' caption='[[5tsp]], [[Resolution\|resolution]] 1.24Å' scene=''>	+	<StructureSection load='5tsp' size='340' side='right'caption='[[5tsp]], [[Resolution\|resolution]] 1.24Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5tsp]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TSP OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5TSP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5tsp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Clop1 Clop1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TSP OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5TSP FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</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=5tsp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tsp OCA], [http://pdbe.org/5tsp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tsp RCSB], [http://www.ebi.ac.uk/pdbsum/5tsp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tsp ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nanI ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=195103 CLOP1])</td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5tsp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tsp OCA], [http://pdbe.org/5tsp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tsp RCSB], [http://www.ebi.ac.uk/pdbsum/5tsp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tsp ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	</div>		</div>
	<div class="pdbe-citations 5tsp" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5tsp" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Neuraminidase 3D structures\|Neuraminidase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Clop1]]
		+	[[Category: Large Structures]]
	[[Category: An, J Y]]		[[Category: An, J Y]]
	[[Category: Eom, S H]]		[[Category: Eom, S H]]

OCA at 06:27, 19 April 2017

OCA — Wed, 19 Apr 2017 06:27:19 GMT

←Older revision		Revision as of 06:27, 19 April 2017
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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=5tsp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tsp OCA], [http://pdbe.org/5tsp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tsp RCSB], [http://www.ebi.ac.uk/pdbsum/5tsp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tsp 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=5tsp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tsp OCA], [http://pdbe.org/5tsp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tsp RCSB], [http://www.ebi.ac.uk/pdbsum/5tsp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tsp ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Anti-bacterial and anti-viral neuraminidase agents inhibit neuraminidase activity catalyzing the hydrolysis of terminal N-acetylneuraminic acid (Neu5Ac) from glycoconjugates and help to prevent the host pathogenesis that lead to fatal infectious diseases including influenza, bacteremia, sepsis, and cholera. Emerging antibiotic and drug resistances to commonly used anti-neuraminidase agents such as oseltamivir (Tamiflu) and zanamivir (Relenza) have highlighted the need to develop new anti-neuraminidase drugs. We obtained a serendipitous complex crystal of the catalytic domain of Clostridium perfringens neuraminidase (CpNanICD) with 2-(cyclohexylamino)ethanesulfonic acid (CHES) as a buffer. Here, we report the crystal structure of CpNanICD in complex with CHES at 1.24 A resolution. Amphipathic CHES binds to the catalytic site of CpNanICD similar to the substrate (Neu5Ac) binding site. The 2-aminoethanesulfonic acid moiety and cyclohexyl groups of CHES interact with the cluster of three arginine residues and with the hydrophobic pocket of the CpNanICD catalytic site. In addition, a structural comparison with other bacterial and human neuraminidases suggests that CHES could serve as a scaffold for the development of new anti-neuraminidase agents targeting CpNanI.
		+
		+	Crystal structure of the catalytic domain of Clostridium perfringens neuraminidase in complex with a non-carbohydrate-based inhibitor, 2-(cyclohexylamino)ethanesulfonic acid.,Lee Y, Youn HS, Lee JG, An JY, Park KR, Kang JY, Ryu YB, Jin MS, Park KH, Eom SH Biochem Biophys Res Commun. 2017 Apr 29;486(2):470-475. doi:, 10.1016/j.bbrc.2017.03.064. Epub 2017 Mar 16. PMID:28315686<ref>PMID:28315686</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5tsp" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 14:04, 29 March 2017

OCA — Wed, 29 Mar 2017 14:04:42 GMT

←Older revision		Revision as of 14:04, 29 March 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5tsp ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of the catalytic domain of Clostridium perfringens neuraminidase (NanI) in complex with a CHES==
-		+	<StructureSection load='5tsp' size='340' side='right' caption='[[5tsp]], [[Resolution\|resolution]] 1.24Å' scene=''>
-	~~Authors~~: ~~Lee, Y~~.~~, Youn, H~~.-S.~~, Lee, J~~.-G., ~~An, J~~.Y.~~, Park, K~~.R., ~~Lim, J~~.J., ~~Kang, J.Y~~., ~~Kim, T~~.G., ~~Ryu, Y~~.B.~~, Park, K.H~~., ~~Eom, S~~.H.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5tsp]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TSP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5TSP FirstGlance]. <br>
-	~~Description: Crystal structure of bacterial neuraminidase in complex with ligand~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</scene></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=5tsp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tsp OCA], [http://pdbe.org/5tsp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tsp RCSB], [http://www.ebi.ac.uk/pdbsum/5tsp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tsp ProSAT]</span></td></tr>
-	~~[[Category: Park, K.H]]~~	+	</table>
-	[[Category: An, J.Y]]	+	__TOC__
-	[[Category: ~~Youn~~, H~~.-S~~]]	+	</StructureSection>
-	[[Category: ~~Kim~~, ~~T.G]]~~	+	[[Category: An, J Y]]
-	~~[[Category: Park, K.R~~]]	+	[[Category: Eom, S H]]
-	[[Category: Kang, J.Y]]	+	[[Category: Jin, M S]]
-	~~[[Category: Lim, J.J~~]]	+	[[Category: Kang, J Y]]
-	[[Category: Lee, J.-G]]	+	[[Category: Lee, J G]]
	[[Category: Lee, Y]]		[[Category: Lee, Y]]
-	[[Category: Ryu, Y.B]]	+	[[Category: Park, K H]]
-	[[Category: ~~Eom~~, S.H]]	+	[[Category: Park, K R]]
		+	[[Category: Ryu, Y B]]
		+	[[Category: Youn, H S]]
		+	[[Category: Hydrolase]]
		+	[[Category: Neuraminidase]]

OCA at 13:46, 9 March 2017

OCA — Thu, 09 Mar 2017 13:46:41 GMT

←Older revision		Revision as of 13:46, 9 March 2017
Line 7:		Line 7:
	Description: Crystal structure of bacterial neuraminidase in complex with ligand		Description: Crystal structure of bacterial neuraminidase in complex with ligand
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Youn, H.-S]]
-	[[Category: Kim, T.G]]
-	[[Category: Lim, J.J]]
-	[[Category: Eom, S.H]]
	[[Category: Park, K.H]]		[[Category: Park, K.H]]
	[[Category: An, J.Y]]		[[Category: An, J.Y]]
		+	[[Category: Youn, H.-S]]
		+	[[Category: Kim, T.G]]
	[[Category: Park, K.R]]		[[Category: Park, K.R]]
	[[Category: Kang, J.Y]]		[[Category: Kang, J.Y]]
		+	[[Category: Lim, J.J]]
	[[Category: Lee, J.-G]]		[[Category: Lee, J.-G]]
	[[Category: Lee, Y]]		[[Category: Lee, Y]]
	[[Category: Ryu, Y.B]]		[[Category: Ryu, Y.B]]
		+	[[Category: Eom, S.H]]

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

OCA — Fri, 09 Dec 2016 17:49:19 GMT

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

←Older revision

Revision as of 17:49, 9 December 2016

OCA: New page: '''Unreleased structure''' The entry 5tsp is ON HOLD until Paper Publication Authors: Lee, Y., Youn, H.-S., Lee, J.-G., An, J.Y., Park, K.R., Lim, J.J., Kang, J.Y., Kim, T.G., Ryu, Y.B....

OCA — Fri, 09 Dec 2016 17:49:18 GMT

New page: '''Unreleased structure''' The entry 5tsp is ON HOLD until Paper Publication Authors: Lee, Y., Youn, H.-S., Lee, J.-G., An, J.Y., Park, K.R., Lim, J.J., Kang, J.Y., Kim, T.G., Ryu, Y.B....

New page

'''Unreleased structure'''

The entry 5tsp is ON HOLD until Paper Publication

Authors: Lee, Y., Youn, H.-S., Lee, J.-G., An, J.Y., Park, K.R., Lim, J.J., Kang, J.Y., Kim, T.G., Ryu, Y.B., Park, K.H., Eom, S.H.

Description: Crystal structure of bacterial neuraminidase in complex with ligand
[[Category: Unreleased Structures]]
[[Category: Youn, H.-S]]
[[Category: Kim, T.G]]
[[Category: Lim, J.J]]
[[Category: Eom, S.H]]
[[Category: Park, K.H]]
[[Category: An, J.Y]]
[[Category: Park, K.R]]
[[Category: Kang, J.Y]]
[[Category: Lee, J.-G]]
[[Category: Lee, Y]]
[[Category: Ryu, Y.B]]