4bbw - Revision history

OCA at 07:07, 31 August 2022

2022-08-31T07:07:19Z

←Older revision		Revision as of 07:07, 31 August 2022
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	<StructureSection load='4bbw' size='340' side='right'caption='[[4bbw]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='4bbw' size='340' side='right'caption='[[4bbw]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4bbw]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_thetaiotaomicron"_distaso_1912 "bacillus thetaiotaomicron" distaso 1912]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4BBW OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4BBW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4bbw]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_thetaiotaomicron"_distaso_1912 "bacillus thetaiotaomicron" distaso 1912]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4BBW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4BBW FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Exo-alpha-sialidase Exo-alpha-sialidase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.18 3.2.1.18] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Exo-alpha-sialidase Exo-alpha-sialidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.18 3.2.1.18] </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=4bbw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4bbw OCA], [~~http~~://pdbe.org/4bbw PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4bbw RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4bbw PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4bbw 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=4bbw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4bbw OCA], [https://pdbe.org/4bbw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4bbw RCSB], [https://www.ebi.ac.uk/pdbsum/4bbw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4bbw ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	==See Also==		==See Also==
-	*[[~~Sialidase~~\|~~Sialidase~~]]	+	*[[Neuraminidase 3D structures\|Neuraminidase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 18:17, 14 August 2019

2019-08-14T18:17:38Z

←Older revision		Revision as of 18:17, 14 August 2019
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	==The crystal structure of Sialidase VPI 5482 (BTSA) from Bacteroides thetaiotaomicron==		==The crystal structure of Sialidase VPI 5482 (BTSA) from Bacteroides thetaiotaomicron==
-	<StructureSection load='4bbw' size='340' side='right' caption='[[4bbw]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='4bbw' size='340' side='right'caption='[[4bbw]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4bbw]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_thetaiotaomicron"_distaso_1912 "bacillus thetaiotaomicron" distaso 1912]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4BBW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4BBW FirstGlance]. <br>		<table><tr><td colspan='2'>[[4bbw]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_thetaiotaomicron"_distaso_1912 "bacillus thetaiotaomicron" distaso 1912]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4BBW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4BBW FirstGlance]. <br>
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	</div>		</div>
	<div class="pdbe-citations 4bbw" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4bbw" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Sialidase\|Sialidase]]
	== References ==		== References ==
	<references/>		<references/>
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	[[Category: Bacillus thetaiotaomicron distaso 1912]]		[[Category: Bacillus thetaiotaomicron distaso 1912]]
	[[Category: Exo-alpha-sialidase]]		[[Category: Exo-alpha-sialidase]]
		+	[[Category: Large Structures]]
	[[Category: Jung, T Y]]		[[Category: Jung, T Y]]
	[[Category: Lee, M H]]		[[Category: Lee, M H]]

OCA at 10:15, 8 November 2017

2017-11-08T10:15:29Z

←Older revision		Revision as of 10:15, 8 November 2017
Line 17:		Line 17:
	</div>		</div>
	<div class="pdbe-citations 4bbw" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4bbw" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Neuraminidase\|Neuraminidase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 07:46, 5 August 2016

2016-08-05T07:46:50Z

←Older revision		Revision as of 07:46, 5 August 2016
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		+
	==The crystal structure of Sialidase VPI 5482 (BTSA) from Bacteroides thetaiotaomicron==		==The crystal structure of Sialidase VPI 5482 (BTSA) from Bacteroides thetaiotaomicron==
	<StructureSection load='4bbw' size='340' side='right' caption='[[4bbw]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='4bbw' size='340' side='right' caption='[[4bbw]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4bbw]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Bacteroides_thetaiotaomicron Bacteroides~~ thetaiotaomicron]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4BBW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4BBW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4bbw]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_thetaiotaomicron"_distaso_1912 "bacillus thetaiotaomicron" distaso 1912]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4BBW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4BBW FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Exo-alpha-sialidase Exo-alpha-sialidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.18 3.2.1.18] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Exo-alpha-sialidase Exo-alpha-sialidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.18 3.2.1.18] </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=4bbw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4bbw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4bbw RCSB], [http://www.ebi.ac.uk/pdbsum/4bbw 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=4bbw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4bbw OCA], [http://pdbe.org/4bbw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4bbw RCSB], [http://www.ebi.ac.uk/pdbsum/4bbw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4bbw ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 4bbw" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 22:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacteroides~~ thetaiotaomicron]]	+	[[Category: Bacillus thetaiotaomicron distaso 1912]]
	[[Category: Exo-alpha-sialidase]]		[[Category: Exo-alpha-sialidase]]
	[[Category: Jung, T Y]]		[[Category: Jung, T Y]]

OCA at 10:05, 21 December 2014

2014-12-21T10:05:49Z

←Older revision		Revision as of 10:05, 21 December 2014
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-	~~{{STRUCTURE_4bbw\| PDB=4bbw \| SCENE= }}~~	+	==The crystal structure of Sialidase VPI 5482 (BTSA) from Bacteroides thetaiotaomicron==
-	===The crystal structure of Sialidase VPI 5482 (BTSA) from Bacteroides thetaiotaomicron===	+	<StructureSection load='4bbw' size='340' side='right' caption='[[4bbw]], [[Resolution\|resolution]] 2.30Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23665536}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4bbw]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacteroides_thetaiotaomicron Bacteroides thetaiotaomicron]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4BBW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4BBW FirstGlance]. <br>
		+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Exo-alpha-sialidase Exo-alpha-sialidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.18 3.2.1.18] </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=4bbw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4bbw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4bbw RCSB], [http://www.ebi.ac.uk/pdbsum/4bbw PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Sialidases release the terminal sialic acid residue from a wide range of sialic acid-containing polysaccharides. Bacteroides thetaiotaomicron, a symbiotic commensal microbe, resides in and dominates the human intestinal tract. We characterized the recombinant sialidase from B. thetaiotaomicron (BTSA) and demonstrated that it has broad substrate specificity with a relative activity of 97, 100 and 64 for 2,3-, 2,6- and 2,8-linked sialic substrates, respectively. The hydrolysis activity of BTSA was inhibited by a transition state analogue, 2-deoxy-2,3-dehydro-N-acetyl neuraminic acid, by competitive inhibition with a Ki value of 35muM. The structure of BSTA was determined at a resolution of 2.3A. This structure exhibited a unique carbohydrate-binding domain (CBM) at its N-terminus (a.a. 23-190) that is adjacent to the catalytic domain (a.a. 191-535). The catalytic domain has a conserved arginine triad with a wide-open entrance for the substrate that exposes the catalytic residue to the surface. Unlike other pathogenic sialidases, the polysaccharide-binding site in the CBM is near the active site and possibly holds and positions the polysaccharide substrate directly at the active site. The structural feature of a wide substrate-binding groove and closer proximity of the polysaccharide-binding site to the active site could be a unique signature of the commensal sialidase BTSA and provide a molecular basis for its pharmaceutical application.

-	~~==About this Structure==~~	+	Structural and biochemical characterization of the broad substrate specificity of Bacteroides thetaiotaomicron commensal sialidase.,Park KH, Kim MG, Ahn HJ, Lee DH, Kim JH, Kim YW, Woo EJ Biochim Biophys Acta. 2013 Aug;1834(8):1510-9. doi: 10.1016/j.bbapap.2013.04.028., Epub 2013 May 9. PMID:23665536<ref>PMID:23665536</ref>
-	~~[[4bbw]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacteroides_thetaiotaomicron~~ Bacteroides thetaiotaomicron]. ~~Full crystallographic information is available from [http~~:/~~/oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id=4BBW OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group~~=~~"xtra">PMID:023665536</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+
		+	==See Also==
		+	*[[Neuraminidase\|Neuraminidase]]
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Bacteroides thetaiotaomicron]]		[[Category: Bacteroides thetaiotaomicron]]
	[[Category: Exo-alpha-sialidase]]		[[Category: Exo-alpha-sialidase]]
-	[[Category: Jung, T Y.]]	+	[[Category: Jung, T Y]]
-	[[Category: Lee, M H.]]	+	[[Category: Lee, M H]]
-	[[Category: Park, K H.]]	+	[[Category: Park, K H]]
-	[[Category: Song, H N.]]	+	[[Category: Song, H N]]
-	[[Category: Woo, E J.]]	+	[[Category: Woo, E J]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Neuramidase]]		[[Category: Neuramidase]]

OCA at 07:53, 14 August 2013

2013-08-14T07:53:55Z

←Older revision		Revision as of 07:53, 14 August 2013
Line 1:		Line 1:
-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_4bbw\| PDB=4bbw \| SCENE= }}
		+	===The crystal structure of Sialidase VPI 5482 (BTSA) from Bacteroides thetaiotaomicron===
		+	{{ABSTRACT_PUBMED_23665536}}

-	~~The entry~~ 4bbw is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
		+	[[4bbw]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacteroides_thetaiotaomicron Bacteroides thetaiotaomicron]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4BBW OCA].

-	~~Authors~~: ~~Park, K.~~-~~H., Song, H.~~-~~N.,~~ Jung, T.-Y., Lee, M.-H., Woo, E.-J.	+	==Reference==
-		+	<ref group="xtra">PMID:023665536</ref><references group="xtra"/><references/>
-	~~Description~~: ~~The crystal structure of Sialidase VPI 5482 (BTSA) from Bacteroides thetaiotaomicron~~	+	[[Category: Bacteroides thetaiotaomicron]]
		+	[[Category: Exo-alpha-sialidase]]
		+	[[Category: Jung, T Y.]]
		+	[[Category: Lee, M H.]]
		+	[[Category: Park, K H.]]
		+	[[Category: Song, H N.]]
		+	[[Category: Woo, E J.]]
		+	[[Category: Hydrolase]]
		+	[[Category: Neuramidase]]

OCA at 13:37, 6 March 2013

2013-03-06T13:37:28Z

←Older revision		Revision as of 13:37, 6 March 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Park, K.-H., Song, H.-N., Jung, T.-Y., Lee, M.-H., Woo, E.-J.		Authors: Park, K.-H., Song, H.-N., Jung, T.-Y., Lee, M.-H., Woo, E.-J.

	Description: The crystal structure of Sialidase VPI 5482 (BTSA) from Bacteroides thetaiotaomicron		Description: The crystal structure of Sialidase VPI 5482 (BTSA) from Bacteroides thetaiotaomicron

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

2012-10-03T05:36:55Z

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

←Older revision

Revision as of 05:36, 3 October 2012

OCA: New page: '''Unreleased structure''' The entry 4bbw is ON HOLD Authors: Park, K.-H., Song, H.-N., Jung, T.-Y., Lee, M.-H., Woo, E.-J. Description: The crystal structure of Sialidase VPI 5482 (BT...

2012-10-03T05:36:54Z

New page: '''Unreleased structure''' The entry 4bbw is ON HOLD Authors: Park, K.-H., Song, H.-N., Jung, T.-Y., Lee, M.-H., Woo, E.-J. Description: The crystal structure of Sialidase VPI 5482 (BT...

New page

'''Unreleased structure'''

The entry 4bbw is ON HOLD

Authors: Park, K.-H., Song, H.-N., Jung, T.-Y., Lee, M.-H., Woo, E.-J.

Description: The crystal structure of Sialidase VPI 5482 (BTSA) from Bacteroides thetaiotaomicron