6ggy - Revision history

OCA at 07:54, 24 April 2019

OCA — Wed, 24 Apr 2019 07:54:17 GMT

←Older revision		Revision as of 07:54, 24 April 2019
Line 1:		Line 1:

	==Paenibacillus sp. YM1 laminaribiose phosphorylase with sulphate bound==		==Paenibacillus sp. YM1 laminaribiose phosphorylase with sulphate bound==
-	<StructureSection load='6ggy' size='340' side='right' caption='[[6ggy]], [[Resolution\|resolution]] 1.95Å' scene=''>	+	<StructureSection load='6ggy' size='340' side='right'caption='[[6ggy]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ggy]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6GGY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6GGY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ggy]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Paenibacillus_sp._ym1 Paenibacillus sp. ym1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6GGY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6GGY FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">lbpA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=856729 Paenibacillus sp. YM1])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Laminaribiose_phosphorylase Laminaribiose phosphorylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.1.31 2.4.1.31] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Laminaribiose_phosphorylase Laminaribiose phosphorylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.1.31 2.4.1.31] </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=6ggy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ggy OCA], [http://pdbe.org/6ggy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ggy RCSB], [http://www.ebi.ac.uk/pdbsum/6ggy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ggy 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=6ggy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ggy OCA], [http://pdbe.org/6ggy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ggy RCSB], [http://www.ebi.ac.uk/pdbsum/6ggy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ggy ProSAT]</span></td></tr>
Line 22:		Line 23:
	</StructureSection>		</StructureSection>
	[[Category: Laminaribiose phosphorylase]]		[[Category: Laminaribiose phosphorylase]]
		+	[[Category: Large Structures]]
		+	[[Category: Paenibacillus sp. ym1]]
	[[Category: Angulo, J]]		[[Category: Angulo, J]]
	[[Category: Field, R A]]		[[Category: Field, R A]]

OCA at 07:44, 14 June 2018

OCA — Thu, 14 Jun 2018 07:44:58 GMT

←Older revision		Revision as of 07:44, 14 June 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6ggy is ~~ON HOLD until Paper~~ Publication	+	==Paenibacillus sp. YM1 laminaribiose phosphorylase with sulphate bound==
		+	<StructureSection load='6ggy' size='340' side='right' caption='[[6ggy]], [[Resolution\|resolution]] 1.95Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6ggy]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6GGY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6GGY FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Laminaribiose_phosphorylase Laminaribiose phosphorylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.1.31 2.4.1.31] </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=6ggy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ggy OCA], [http://pdbe.org/6ggy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ggy RCSB], [http://www.ebi.ac.uk/pdbsum/6ggy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ggy ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Glycoside phosphorylases (GPs) carry out a reversible phosphorolysis of carbohydrates into oligosaccharide acceptors and the corresponding sugar 1-phosphates. The reversibility of the reaction enables the use of GPs as biocatalysts for carbohydrate synthesis. Glycosyl hydrolase family 94 (GH94), which only comprises GPs, is one of the most studied GP families that have been used as biocatalysts for carbohydrate synthesis, in academic research and in industrial production. Understanding the mechanism of GH94 enzymes is a crucial step towards enzyme engineering to improve and expand the applications of these enzymes in synthesis. In this work with a GH94 laminaribiose phosphorylase from Paenibacillus sp. YM1 (PsLBP), we have demonstrated an enzymatic synthesis of disaccharide 1 using natural acceptor glucose and non-cognate donor substrate -mannose 1-phosphate (Man1P). To investigate how the enzyme recognizes different sugar 1-phosphates, we solved the X-ray crystal structures of PsLBP in complex with Glc1P and Man1P, providing the first molecular detail of the recognition of a non-cognate donor substrate by GPs, which revealed the importance of hydrogen bonding between the active site residues and hydroxyl groups at C2, C4 and C6 of sugar 1-phosphates. Furthermore, we used STD NMR to support the crystallographic studies on the sugar 1-phosphates, as well as to provide further insights into the PsLBP recognition of the acceptors and the disaccharide products.

-	~~Authors~~:	+	Unravelling the relaxed specificity of laminaribiose phosphorylase from Paenibacillus sp. strain YM-1 towards mannose 1-phosphate.,Field RA, Kuhaudomlarp S, Walpole S, Stevenson C, Nepogodiev S, Lawson D, Angulo J Chembiochem. 2018 Jun 1. doi: 10.1002/cbic.201800260. PMID:29856496<ref>PMID:29856496</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 6ggy" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Laminaribiose phosphorylase]]
		+	[[Category: Angulo, J]]
		+	[[Category: Field, R A]]
		+	[[Category: Kuhaudomlarp, S]]
		+	[[Category: Lawson, D M]]
		+	[[Category: Nepogodiev, S A]]
		+	[[Category: Stevenson, C E.M]]
		+	[[Category: Walpole, S]]
		+	[[Category: Carbohydrate]]
		+	[[Category: Disaccharide synthesis]]
		+	[[Category: Glycosyl hydrolase 94]]
		+	[[Category: Hydrolase]]

OCA: Protected "6ggy" [edit=sysop:move=sysop]

OCA — Wed, 16 May 2018 04:12:40 GMT

Protected "6ggy" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:12, 16 May 2018

OCA: New page: '''Unreleased structure''' The entry 6ggy is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Wed, 16 May 2018 04:12:39 GMT

New page: '''Unreleased structure''' The entry 6ggy is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6ggy is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]