7dw8 - Revision history

OCA at 16:40, 29 November 2023

OCA — Wed, 29 Nov 2023 16:40:59 GMT

←Older revision		Revision as of 16:40, 29 November 2023
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	==Structure of a novel beta-mannanase BaMan113A with mannobiose, N236Y mutation.==		==Structure of a novel beta-mannanase BaMan113A with mannobiose, N236Y mutation.==
-	<StructureSection load='7dw8' size='340' side='right'caption='[[7dw8]]' scene=''>	+	<StructureSection load='7dw8' size='340' side='right'caption='[[7dw8]], [[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=7DW8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DW8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7dw8]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_sp._N16-5 Bacillus sp. N16-5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7DW8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DW8 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=7dw8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7dw8 OCA], [https://pdbe.org/7dw8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7dw8 RCSB], [https://www.ebi.ac.uk/pdbsum/7dw8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7dw8 ProSAT]</span></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]] 1.9Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=PRD_900115:4beta-beta-mannobiose'>PRD_900115</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=7dw8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7dw8 OCA], [https://pdbe.org/7dw8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7dw8 RCSB], [https://www.ebi.ac.uk/pdbsum/7dw8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7dw8 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A140EH91_9BACI A0A140EH91_9BACI]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Mannan is an important renewable resource whose backbone can be hydrolyzed by beta-mannanases to generate manno-oligosaccharides of various sizes. Only a few glycoside hydrolase (GH) 113 family beta-mannanases have been functionally and structurally characterize. Here, we report the function and structure of a novel GH113 beta-mannanase from Bacillus sp. N16-5 (BaMan113A). BaMan113A exhibits a substrate preference toward manno-oligosaccharides and releases mannose and mannobiose as main hydrolytic products. The crystal structure of BaMan113A suggest that the enzyme shows a semi-enclosed substrate-binding cleft and the amino acids surrounding the +2 subsite form a steric barrier to terminate the substrate-binding tunnel. Based on these structural features, we conducted mutagenesis to engineer BaMan113A to remove the steric hindrance of the substrate-binding tunnel. We found that F101E and N236Y variants exhibit increased specific activity toward mannans comparing to the wild-type enzyme. Meanwhile, the product profiles of these two variants toward polysaccharides changed from mannose to a series of manno-oligosaccharides. The crystal structure of variant N236Y was also determined to illustrate the molecular basis underlying the mutation. In conclusion, we report the functional and structural features of a novel GH113 beta-mannanase, and successfully improved its endo-acting activity by using structure-based engineering.
		+
		+	Functional and structural investigation of a novel beta-mannanase BaMan113A from Bacillus sp. N16-5.,Liu W, Ma C, Liu W, Zheng Y, Chen CC, Liang A, Luo X, Li Z, Ma W, Song Y, Guo RT, Zhang T Int J Biol Macromol. 2021 Apr 15;182:899-909. doi:, 10.1016/j.ijbiomac.2021.04.075. PMID:33865894<ref>PMID:33865894</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7dw8" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus sp. N16-5]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Liu WD]]		[[Category: Liu WD]]
	[[Category: Liu WT]]		[[Category: Liu WT]]
	[[Category: Zheng YY]]		[[Category: Zheng YY]]

OCA at 14:34, 2 June 2021

OCA — Wed, 02 Jun 2021 14:34:53 GMT

←Older revision		Revision as of 14:34, 2 June 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 7dw8 ~~is ON HOLD until Paper Publication~~	+	==Structure of a novel beta-mannanase BaMan113A with mannobiose, N236Y mutation.==
-		+	<StructureSection load='7dw8' size='340' side='right'caption='[[7dw8]]' scene=''>
-	~~Authors~~: ~~Liu~~, W.T., ~~Liu~~, W.D., ~~Zheng~~, Y.Y.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7DW8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DW8 FirstGlance]. <br>
-	~~Description: Structure of a novel beta-mannanase BaMan113B with mannobiose, N236Y mutation~~	+	</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=7dw8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7dw8 OCA], [https://pdbe.org/7dw8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7dw8 RCSB], [https://www.ebi.ac.uk/pdbsum/7dw8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7dw8 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: Liu~~, W.T~~]]	+	__TOC__
-	[[Category: Liu~~, W.D~~]]	+	</StructureSection>
-	[[Category: Zheng~~, Y.Y~~]]	+	[[Category: Large Structures]]
		+	[[Category: Liu WD]]
		+	[[Category: Liu WT]]
		+	[[Category: Zheng YY]]

OCA at 05:31, 24 February 2021

OCA — Wed, 24 Feb 2021 05:31:21 GMT

←Older revision		Revision as of 05:31, 24 February 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7dw8 is ON HOLD	+	The entry 7dw8 is ON HOLD until Paper Publication

	Authors: Liu, W.T., Liu, W.D., Zheng, Y.Y.		Authors: Liu, W.T., Liu, W.D., Zheng, Y.Y.
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	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Liu, W.T]]		[[Category: Liu, W.T]]
-	[[Category: Zheng, Y.Y]]
	[[Category: Liu, W.D]]		[[Category: Liu, W.D]]
		+	[[Category: Zheng, Y.Y]]

OCA: Protected "7dw8" [edit=sysop:move=sysop]

OCA — Wed, 27 Jan 2021 06:38:40 GMT

Protected "7dw8" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:38, 27 January 2021

OCA: New page: '''Unreleased structure''' The entry 7dw8 is ON HOLD Authors: Liu, W.T., Liu, W.D., Zheng, Y.Y. Description: Structure of a novel beta-mannanase BaMan113B with mannobiose, N236Y mutati...

OCA — Wed, 27 Jan 2021 06:38:39 GMT

New page: '''Unreleased structure''' The entry 7dw8 is ON HOLD Authors: Liu, W.T., Liu, W.D., Zheng, Y.Y. Description: Structure of a novel beta-mannanase BaMan113B with mannobiose, N236Y mutati...

New page

'''Unreleased structure'''

The entry 7dw8 is ON HOLD

Authors: Liu, W.T., Liu, W.D., Zheng, Y.Y.

Description: Structure of a novel beta-mannanase BaMan113B with mannobiose, N236Y mutation
[[Category: Unreleased Structures]]
[[Category: Liu, W.T]]
[[Category: Zheng, Y.Y]]
[[Category: Liu, W.D]]