6zpy - Revision history

OCA at 11:56, 1 February 2024

OCA — Thu, 01 Feb 2024 11:56:08 GMT

←Older revision		Revision as of 11:56, 1 February 2024
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	<StructureSection load='6zpy' size='340' side='right'caption='[[6zpy]], [[Resolution\|resolution]] 1.27Å' scene=''>		<StructureSection load='6zpy' size='340' side='right'caption='[[6zpy]], [[Resolution\|resolution]] 1.27Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6zpy]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Boletus_giganteus Boletus~~ giganteus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ZPY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6ZPY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6zpy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Meripilus_giganteus Meripilus giganteus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ZPY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6ZPY FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AHR:ALPHA-L-ARABINOFURANOSE'>AHR</scene>, <scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL~~</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3~~</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene><~~/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]] 1.27Å</td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>[http://en.wikipedia.org/wiki/Non-reducing_end_alpha-L-arabinofuranosidase Non-reducing end alpha-L-arabinofuranosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.55 3.2.1.55] </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AHR:ALPHA-L-ARABINOFURANOSE'>AHR</scene>, <scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=6zpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zpy OCA], [~~http~~://pdbe.org/6zpy PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6zpy RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6zpy PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6zpy 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=6zpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zpy OCA], [https://pdbe.org/6zpy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6zpy RCSB], [https://www.ebi.ac.uk/pdbsum/6zpy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6zpy ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Boletus giganteus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Non-reducing end alpha-L-arabinofuranosidase~~]]	+	[[Category: Meripilus giganteus]]
-	[[Category: Davies~~, G J~~]]	+	[[Category: Davies GJ]]
-	[[Category: McGregor~~, N G.S]]~~	+	[[Category: McGregor NGS]]
-	~~[[Category: Arabinofuranosidse]]~~	+
-	~~[[Category: Arabinose]]~~	+
-	~~[[Category: Gh51]]~~	+
-	~~[[Category: Glycosidase]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 09:56, 18 November 2020

OCA — Wed, 18 Nov 2020 09:56:53 GMT

←Older revision		Revision as of 09:56, 18 November 2020
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	==Structure of Arabinose-Bound MgGH51 a-L-Arabinofuranosidase Crystal Type 1==		==Structure of Arabinose-Bound MgGH51 a-L-Arabinofuranosidase Crystal Type 1==
-	<StructureSection load='6zpy' size='340' side='right'caption='[[6zpy]]' scene=''>	+	<StructureSection load='6zpy' size='340' side='right'caption='[[6zpy]], [[Resolution\|resolution]] 1.27Å' 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=6ZPY OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6ZPY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6zpy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Boletus_giganteus Boletus giganteus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ZPY OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6ZPY FirstGlance]. <br>
-	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6zpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zpy OCA], [http://pdbe.org/6zpy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6zpy RCSB], [http://www.ebi.ac.uk/pdbsum/6zpy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6zpy 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=AHR:ALPHA-L-ARABINOFURANOSE'>AHR</scene>, <scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-reducing_end_alpha-L-arabinofuranosidase Non-reducing end alpha-L-arabinofuranosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.55 3.2.1.55] </span></td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6zpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zpy OCA], [http://pdbe.org/6zpy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6zpy RCSB], [http://www.ebi.ac.uk/pdbsum/6zpy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6zpy ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	alpha-L-Arabinofuranosidases from glycoside hydrolase family 51 use a stereochemically retaining hydrolytic mechanism to liberate nonreducing terminal alpha-L-arabinofuranose residues from plant polysaccharides such as arabinoxylan and arabinan. To date, more than ten fungal GH51 alpha-L-arabinofuranosidases have been functionally characterized, yet no structure of a fungal GH51 enzyme has been solved. In contrast, seven bacterial GH51 enzyme structures, with low sequence similarity to the fungal GH51 enzymes, have been determined. Here, the crystallization and structural characterization of MgGH51, an industrially relevant GH51 alpha-L-arabinofuranosidase cloned from Meripilus giganteus, are reported. Three crystal forms were grown in different crystallization conditions. The unliganded structure was solved using sulfur SAD data collected from a single crystal using the I23 in vacuo diffraction beamline at Diamond Light Source. Crystal soaks with arabinose, 1,4-dideoxy-1,4-imino-L-arabinitol and two cyclophellitol-derived arabinose mimics reveal a conserved catalytic site and conformational itinerary between fungal and bacterial GH51 alpha-L-arabinofuranosidases.
		+
		+	Structure of a GH51 alpha-L-arabinofuranosidase from Meripilus giganteus: conserved substrate recognition from bacteria to fungi.,McGregor NGS, Turkenburg JP, Morkeberg Krogh KBR, Nielsen JE, Artola M, Stubbs KA, Overkleeft HS, Davies GJ Acta Crystallogr D Struct Biol. 2020 Nov 1;76(Pt 11):1124-1133. doi:, 10.1107/S205979832001253X. Epub 2020 Oct 16. PMID:33135683<ref>PMID:33135683</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6zpy" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Boletus giganteus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Davies GJ]]	+	[[Category: Non-reducing end alpha-L-arabinofuranosidase]]
-	[[Category: McGregor ~~NGS~~]]	+	[[Category: Davies, G J]]
		+	[[Category: McGregor, N G.S]]
		+	[[Category: Arabinofuranosidse]]
		+	[[Category: Arabinose]]
		+	[[Category: Gh51]]
		+	[[Category: Glycosidase]]
		+	[[Category: Hydrolase]]

OCA at 08:01, 11 November 2020

OCA — Wed, 11 Nov 2020 08:01:35 GMT

←Older revision		Revision as of 08:01, 11 November 2020
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-	'''Unreleased structure'''

-	~~The entry 6zpy is ON HOLD until Paper Publication~~	+	==Structure of Arabinose-Bound MgGH51 a-L-Arabinofuranosidase Crystal Type 1==
-		+	<StructureSection load='6zpy' size='340' side='right'caption='[[6zpy]]' scene=''>
-	~~Authors: McGregor, N.G.S., Davies, G.J.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ZPY OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6ZPY FirstGlance]. <br>
-	~~Description:~~ Structure of Arabinose-Bound MgGH51 a-L-Arabinofuranosidase Crystal Type 1	+	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6zpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zpy OCA], [http://pdbe.org/6zpy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6zpy RCSB], [http://www.ebi.ac.uk/pdbsum/6zpy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6zpy ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[~~Category~~: ~~Mcgregor~~, N.G.S]]	+	__TOC__
-	[[Category: Davies~~, G.J~~]]	+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Davies GJ]]
		+	[[Category: McGregor NGS]]

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

OCA — Wed, 22 Jul 2020 08:11:28 GMT

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

←Older revision

Revision as of 08:11, 22 July 2020

OCA: New page: '''Unreleased structure''' The entry 6zpy is ON HOLD until Paper Publication Authors: McGregor, N.G.S., Davies, G.J. Description: Structure of Arabinose-Bound MgGH51 a-L-Arabinofuranos...

OCA — Wed, 22 Jul 2020 08:11:27 GMT

New page: '''Unreleased structure''' The entry 6zpy is ON HOLD until Paper Publication Authors: McGregor, N.G.S., Davies, G.J. Description: Structure of Arabinose-Bound MgGH51 a-L-Arabinofuranos...

New page

'''Unreleased structure'''

The entry 6zpy is ON HOLD until Paper Publication

Authors: McGregor, N.G.S., Davies, G.J.

Description: Structure of Arabinose-Bound MgGH51 a-L-Arabinofuranosidase Crystal Type 1
[[Category: Unreleased Structures]]
[[Category: Mcgregor, N.G.S]]
[[Category: Davies, G.J]]