7db5 - Revision history

OCA at 07:12, 7 April 2021

OCA — Wed, 07 Apr 2021 07:12:38 GMT

←Older revision		Revision as of 07:12, 7 April 2021
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	==Crystal structure of alpha-L-fucosidase from Vibrio sp. strain EJY3==		==Crystal structure of alpha-L-fucosidase from Vibrio sp. strain EJY3==
-	<StructureSection load='7db5' size='340' side='right'caption='[[7db5]]' scene=''>	+	<StructureSection load='7db5' size='340' side='right'caption='[[7db5]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7DB5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DB5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7db5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibsj Vibsj]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7DB5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DB5 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=7db5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7db5 OCA], [https://pdbe.org/7db5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7db5 RCSB], [https://www.ebi.ac.uk/pdbsum/7db5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7db5 ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=7db5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7db5 OCA], [https://pdbe.org/7db5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7db5 RCSB], [https://www.ebi.ac.uk/pdbsum/7db5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7db5 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Carbohydrates are structurally and functionally diverse materials including polysaccharides, and marine organisms are known to have many enzymes for the breakdown of complex polysaccharides. Here, we identified an alpha-l-fucosidase enzyme from the marine bacterium Vibrio sp. strain EJY3 (VejFCD) that has dual alpha-1,4-glucosidic and beta-1,4-galactosidic specificities. We determined the crystal structure of VejFCD and provided the structural basis underlying the dual alpha- and beta-glycosidase activities of the enzyme. Unlike other three-domain FCDs, in VejFCD, carbohydrate-binding module-B (CBM-B) with a novel beta-sandwich fold tightly contacts with the CatD/CBM-B main body and provides key residues for the beta-1,4-glycosidase activity of the enzyme. The phylogenetic tree analysis suggests that only a few FCDs from marine microorganisms have the key structural features for dual alpha-1,4- and beta-1,4-glycosidase activities. This study provides the structural insights into the mechanism underlying the novel glycoside hydrolase activities and could be applied for more efficient utilization in the hydrolysis of complex carbohydrates in biotechnological applications.
		+
		+	Dual alpha-1,4- and beta-1,4-Glycosidase Activities by the Novel Carbohydrate-Binding Module in alpha-l-Fucosidase from Vibrio sp. Strain EJY3.,Hong H, Kim DH, Seo H, Kim KH, Kim KJ J Agric Food Chem. 2021 Mar 11. doi: 10.1021/acs.jafc.0c08199. PMID:33705122<ref>PMID:33705122</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7db5" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Hong H]]	+	[[Category: Vibsj]]
-	[[Category: Kim K-J]]	+	[[Category: Hong, H]]
		+	[[Category: Kim, K J]]
		+	[[Category: Hydrolase]]

OCA at 06:40, 24 March 2021

OCA — Wed, 24 Mar 2021 06:40:35 GMT

←Older revision		Revision as of 06:40, 24 March 2021
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-	'''Unreleased structure'''

-	~~The entry 7db5 is ON HOLD until Paper Publication~~	+	==Crystal structure of alpha-L-fucosidase from Vibrio sp. strain EJY3==
-		+	<StructureSection load='7db5' size='340' side='right'caption='[[7db5]]' scene=''>
-	~~Authors: Hong, H., Kim, K.-J.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7DB5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DB5 FirstGlance]. <br>
-	~~Description:~~ Crystal structure of alpha-L-fucosidase from Vibrio sp. strain EJY3	+	</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=7db5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7db5 OCA], [https://pdbe.org/7db5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7db5 RCSB], [https://www.ebi.ac.uk/pdbsum/7db5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7db5 ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[~~Category~~: ~~Kim~~, K.-J]]	+	__TOC__
-	[[Category: Hong, H]]	+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Hong H]]
		+	[[Category: Kim K-J]]

OCA at 05:28, 4 November 2020

OCA — Wed, 04 Nov 2020 05:28:36 GMT

←Older revision		Revision as of 05:28, 4 November 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7db5 is ON HOLD	+	The entry 7db5 is ON HOLD until Paper Publication

-	Authors: Hong, H., Kim, K.J.	+	Authors: Hong, H., Kim, K.-J.

	Description: Crystal structure of alpha-L-fucosidase from Vibrio sp. strain EJY3		Description: Crystal structure of alpha-L-fucosidase from Vibrio sp. strain EJY3
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Kim, K.J]]	+	[[Category: Kim, K.-J]]
	[[Category: Hong, H]]		[[Category: Hong, H]]

OCA: Protected "7db5" [edit=sysop:move=sysop]

OCA — Wed, 28 Oct 2020 19:03:15 GMT

Protected "7db5" [edit=sysop:move=sysop]

←Older revision

Revision as of 19:03, 28 October 2020

OCA: New page: '''Unreleased structure''' The entry 7db5 is ON HOLD Authors: Hong, H., Kim, K.J. Description: Crystal structure of alpha-L-fucosidase from Vibrio sp. strain EJY3 [[Category: Unrelease...

OCA — Wed, 28 Oct 2020 19:03:14 GMT

New page: '''Unreleased structure''' The entry 7db5 is ON HOLD Authors: Hong, H., Kim, K.J. Description: Crystal structure of alpha-L-fucosidase from Vibrio sp. strain EJY3 [[Category: Unrelease...

New page

'''Unreleased structure'''

The entry 7db5 is ON HOLD

Authors: Hong, H., Kim, K.J.

Description: Crystal structure of alpha-L-fucosidase from Vibrio sp. strain EJY3
[[Category: Unreleased Structures]]
[[Category: Kim, K.J]]
[[Category: Hong, H]]