8h1n - Revision history

OCA at 07:25, 12 July 2023

OCA — Wed, 12 Jul 2023 07:25:06 GMT

←Older revision		Revision as of 07:25, 12 July 2023
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-	'''Unreleased structure'''

-	~~The entry~~ 8h1n is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of glucose-2-epimerase mutant_D254A in complex with D-Glucitol from Runella slithyformis Runsl_4512==
		+	<StructureSection load='8h1n' size='340' side='right'caption='[[8h1n]], [[Resolution\|resolution]] 2.67Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[8h1n]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Runella_slithyformis Runella slithyformis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8H1N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8H1N FirstGlance]. <br>
		+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.67Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=SOR:D-SORBITOL'>SOR</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=8h1n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8h1n OCA], [https://pdbe.org/8h1n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8h1n RCSB], [https://www.ebi.ac.uk/pdbsum/8h1n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8h1n ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A7U4E834_RUNSL A0A7U4E834_RUNSL]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Mannose 2-epimerase (ME), a member of the acylglucosamine 2-epimerase (AGE) superfamily that catalyzes epimerization of D-mannose and D-glucose, has recently been characterized to have potential for D-mannose production. However, the substrate-recognition and catalytic mechanism of ME remains unknown. In this study, structures of Runella slithyformis ME (RsME) and its D254A mutant [RsME(D254A)] were determined in their apo forms and as intermediate-analog complexes [RsME-D-glucitol and RsME(D254A)-D-glucitol]. RsME possesses the (alpha/alpha)(6)-barrel of the AGE superfamily members but has a unique pocket-covering long loop (loop(alpha7-alpha8)). The RsME-D-glucitol structure showed that loop(alpha7-alpha8) moves towards D-glucitol and closes the active pocket. Trp251 and Asp254 in loop(alpha7-alpha8) are only conserved in MEs and interact with D-glucitol. Kinetic analyses of the mutants confirmed the importance of these residues for RsME activity. Moreover, the structures of RsME(D254A) and RsME(D254A)-D-glucitol revealed that Asp254 is vital for binding the ligand in a correct conformation and for active-pocket closure. Docking calculations and structural comparison with other 2-epimerases show that the longer loop(alpha7-alpha8) in RsME causes steric hindrance upon binding to disaccharides. A detailed substrate-recognition and catalytic mechanism for monosaccharide-specific epimerization in RsME has been proposed.

-	~~Authors: Wang~~, H., Sun, X~~.M.~~, Saburi, W., Yu, J., ~~Yao~~, M.	+	Structural insights into the substrate specificity and activity of a novel mannose 2-epimerase from Runella slithyformis.,Wang H, Sun X, Saburi W, Hashiguchi S, Yu J, Ose T, Mori H, Yao M Acta Crystallogr D Struct Biol. 2023 Jul 1;79(Pt 7):585-595. doi: , 10.1107/S205979832300390X. Epub 2023 Jun 14. PMID:37314406<ref>PMID:37314406</ref>

-	~~Description: Crystal structure~~ of ~~glucose~~-2-~~epimerase mutant_D254A in complex with D-Glucitol from Runella slithyformis Runsl_4512~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
-	[[Category: ~~Sun, X.M~~]]	+	<div class="pdbe-citations 8h1n" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Yao, M~~]]	+	== References ==
-	[[Category: ~~Saburi, W~~]]	+	<references/>
-	[[Category: Wang, H]]	+	__TOC__
-	[[Category: Yu, J]]	+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Runella slithyformis]]
		+	[[Category: Saburi W]]
		+	[[Category: Sun XM]]
		+	[[Category: Wang H]]
		+	[[Category: Yao M]]
		+	[[Category: Yu J]]

OCA at 05:46, 22 March 2023

OCA — Wed, 22 Mar 2023 05:46:00 GMT

←Older revision		Revision as of 05:46, 22 March 2023
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 8h1n is ON HOLD	+	The entry 8h1n is ON HOLD until Paper Publication

	Authors: Wang, H., Sun, X.M., Saburi, W., Yu, J., Yao, M.		Authors: Wang, H., Sun, X.M., Saburi, W., Yu, J., Yao, M.
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	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Sun, X.M]]		[[Category: Sun, X.M]]
-	[[Category: Saburi, W]]
	[[Category: Yao, M]]		[[Category: Yao, M]]
		+	[[Category: Saburi, W]]
	[[Category: Wang, H]]		[[Category: Wang, H]]
	[[Category: Yu, J]]		[[Category: Yu, J]]

OCA at 10:29, 22 February 2023

OCA — Wed, 22 Feb 2023 10:29:22 GMT

←Older revision		Revision as of 10:29, 22 February 2023
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 8h1n is ON HOLD ~~until Paper Publication~~	+	The entry 8h1n is ON HOLD

	Authors: Wang, H., Sun, X.M., Saburi, W., Yu, J., Yao, M.		Authors: Wang, H., Sun, X.M., Saburi, W., Yu, J., Yao, M.

OCA at 18:19, 16 November 2022

OCA — Wed, 16 Nov 2022 18:19:19 GMT

←Older revision		Revision as of 18:19, 16 November 2022
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 8h1n is ON HOLD	+	The entry 8h1n is ON HOLD until Paper Publication

	Authors: Wang, H., Sun, X.M., Saburi, W., Yu, J., Yao, M.		Authors: Wang, H., Sun, X.M., Saburi, W., Yu, J., Yao, M.
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	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Sun, X.M]]		[[Category: Sun, X.M]]
-	[[Category: Yao, M]]
	[[Category: Saburi, W]]		[[Category: Saburi, W]]
		+	[[Category: Yao, M]]
	[[Category: Wang, H]]		[[Category: Wang, H]]
	[[Category: Yu, J]]		[[Category: Yu, J]]

OCA: Protected "8h1n" [edit=sysop:move=sysop]

OCA — Wed, 19 Oct 2022 17:42:21 GMT

Protected "8h1n" [edit=sysop:move=sysop]

←Older revision

Revision as of 17:42, 19 October 2022

OCA: New page: '''Unreleased structure''' The entry 8h1n is ON HOLD Authors: Wang, H., Sun, X.M., Saburi, W., Yu, J., Yao, M. Description: Crystal structure of glucose-2-epimerase mutant_D254A in com...

OCA — Wed, 19 Oct 2022 17:42:20 GMT

New page: '''Unreleased structure''' The entry 8h1n is ON HOLD Authors: Wang, H., Sun, X.M., Saburi, W., Yu, J., Yao, M. Description: Crystal structure of glucose-2-epimerase mutant_D254A in com...

New page

'''Unreleased structure'''

The entry 8h1n is ON HOLD

Authors: Wang, H., Sun, X.M., Saburi, W., Yu, J., Yao, M.

Description: Crystal structure of glucose-2-epimerase mutant_D254A in complex with D-Glucitol from Runella slithyformis Runsl_4512
[[Category: Unreleased Structures]]
[[Category: Sun, X.M]]
[[Category: Yao, M]]
[[Category: Saburi, W]]
[[Category: Wang, H]]
[[Category: Yu, J]]