6uat - Revision history

OCA at 14:56, 13 March 2024

2024-03-13T14:56:46Z

←Older revision		Revision as of 14:56, 13 March 2024
Line 3:		Line 3:
	<StructureSection load='6uat' size='340' side='right'caption='[[6uat]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='6uat' size='340' side='right'caption='[[6uat]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6uat]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"streptomyces_mediterranei"_margalith_and_beretta_1960 "streptomyces~~ mediterranei~~" margalith and beretta 1960~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UAT OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6UAT FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6uat]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Amycolatopsis_mediterranei Amycolatopsis mediterranei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UAT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6UAT FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 1.9Å</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=6uat FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6uat OCA], [~~http~~://pdbe.org/6uat PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6uat RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6uat PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6uat ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=6uat FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6uat OCA], [https://pdbe.org/6uat PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6uat RCSB], [https://www.ebi.ac.uk/pdbsum/6uat PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6uat ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/G0FQ07_AMYMS G0FQ07_AMYMS]
-	The fundamental and assorted roles of beta-1,3-glucans in nature are underpinned on diverse chemistry and molecular structures, demanding sophisticated and intricate enzymatic systems for their processing. In this work, the selectivity and modes of action of a glycoside hydrolase family active on beta-1,3-glucans were systematically investigated combining sequence similarity network, phylogeny, X-ray crystallography, enzyme kinetics, mutagenesis and molecular dynamics. ~~This family exhibits a minimalist and versatile (alpha~~/beta)-barrel scaffold, which can harbor distinguishing exo or endo modes of action, including an ancillary-binding site for the anchoring of triple-helical beta-1,3-glucans. The substrate binding occurs via a hydrophobic knuckle complementary to the canonical curved conformation of beta-1,3-glucans or through a substrate conformational change imposed by the active-site topology of some fungal enzymes. Together, these findings expand our understanding of the enzymatic arsenal of bacteria and fungi for the breakdown and modification of beta-1,3-glucans, which can be exploited for biotechnological applications.	+

-	Structural insights into beta-1,3-glucan cleavage by a glycoside hydrolase family.,Santos CR, Costa PACR, Vieira PS, Gonzalez SET, Correa TLR, Lima EA, Mandelli F, Pirolla RAS, Domingues MN, Cabral L, Martins MP, Cordeiro RL, Junior AT, Souza BP, Prates ET, Gozzo FC, Persinoti GF, Skaf MS, Murakami MT Nat Chem Biol. 2020 May 25. pii: 10.1038/s41589-020-0554-5. doi:, 10.1038/s41589-020-0554-5. PMID:32451508<ref>PMID:32451508</ref>	+	==See Also==
-		+	*[[Glucanase 3D structures\|Glucanase 3D structures]]
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 6uat" style="background-color:#fffaf0;"></div>~~	+
-	== ~~References~~ ==	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Streptomyces~~ mediterranei ~~margalith and beretta 1960~~]]	+	[[Category: Amycolatopsis mediterranei]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Cabral, L]]	+	[[Category: Cabral L]]
-	[[Category: Costa~~, P A.C R~~]]	+	[[Category: Costa PACR]]
-	[[Category: Murakami~~, M T~~]]	+	[[Category: Murakami MT]]
-	[[Category: Santos~~, C R~~]]	+	[[Category: Santos CR]]
-	[[Category: Vieira~~, P S]]~~	+	[[Category: Vieira PS]]
-	~~[[Category: Carbohydrate]]~~	+
-	~~[[Category: Glycosyl hydrolase]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 06:42, 10 June 2020

2020-06-10T06:42:47Z

←Older revision		Revision as of 06:42, 10 June 2020
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	==Crystal structure of a GH128 (subgroup I) endo-beta-1,3-glucanase (E102A mutant) from Amycolatopsis mediterranei (AmGH128_I) in complex with laminaripentaose==		==Crystal structure of a GH128 (subgroup I) endo-beta-1,3-glucanase (E102A mutant) from Amycolatopsis mediterranei (AmGH128_I) in complex with laminaripentaose==
-	<StructureSection load='6uat' size='340' side='right'caption='[[6uat]]' scene=''>	+	<StructureSection load='6uat' size='340' side='right'caption='[[6uat]], [[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=6UAT OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6UAT FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6uat]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"streptomyces_mediterranei"_margalith_and_beretta_1960 "streptomyces mediterranei" margalith and beretta 1960]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UAT OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6UAT 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=6uat FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6uat OCA], [http://pdbe.org/6uat PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6uat RCSB], [http://www.ebi.ac.uk/pdbsum/6uat PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6uat 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=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=6uat FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6uat OCA], [http://pdbe.org/6uat PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6uat RCSB], [http://www.ebi.ac.uk/pdbsum/6uat PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6uat ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The fundamental and assorted roles of beta-1,3-glucans in nature are underpinned on diverse chemistry and molecular structures, demanding sophisticated and intricate enzymatic systems for their processing. In this work, the selectivity and modes of action of a glycoside hydrolase family active on beta-1,3-glucans were systematically investigated combining sequence similarity network, phylogeny, X-ray crystallography, enzyme kinetics, mutagenesis and molecular dynamics. This family exhibits a minimalist and versatile (alpha/beta)-barrel scaffold, which can harbor distinguishing exo or endo modes of action, including an ancillary-binding site for the anchoring of triple-helical beta-1,3-glucans. The substrate binding occurs via a hydrophobic knuckle complementary to the canonical curved conformation of beta-1,3-glucans or through a substrate conformational change imposed by the active-site topology of some fungal enzymes. Together, these findings expand our understanding of the enzymatic arsenal of bacteria and fungi for the breakdown and modification of beta-1,3-glucans, which can be exploited for biotechnological applications.
		+
		+	Structural insights into beta-1,3-glucan cleavage by a glycoside hydrolase family.,Santos CR, Costa PACR, Vieira PS, Gonzalez SET, Correa TLR, Lima EA, Mandelli F, Pirolla RAS, Domingues MN, Cabral L, Martins MP, Cordeiro RL, Junior AT, Souza BP, Prates ET, Gozzo FC, Persinoti GF, Skaf MS, Murakami MT Nat Chem Biol. 2020 May 25. pii: 10.1038/s41589-020-0554-5. doi:, 10.1038/s41589-020-0554-5. PMID:32451508<ref>PMID:32451508</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6uat" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Streptomyces mediterranei margalith and beretta 1960]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Cabral L]]	+	[[Category: Cabral, L]]
-	[[Category: Costa ~~PACR~~]]	+	[[Category: Costa, P A.C R]]
-	[[Category: Murakami MT]]	+	[[Category: Murakami, M T]]
-	[[Category: Santos CR]]	+	[[Category: Santos, C R]]
-	[[Category: Vieira PS]]	+	[[Category: Vieira, P S]]
		+	[[Category: Carbohydrate]]
		+	[[Category: Glycosyl hydrolase]]
		+	[[Category: Hydrolase]]

OCA at 05:48, 20 May 2020

2020-05-20T05:48:02Z

←Older revision		Revision as of 05:48, 20 May 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6uat is ~~ON HOLD until Paper Publication~~	+	==Crystal structure of a GH128 (subgroup I) endo-beta-1,3-glucanase (E102A mutant) from Amycolatopsis mediterranei (AmGH128_I) in complex with laminaripentaose==
-		+	<StructureSection load='6uat' size='340' side='right'caption='[[6uat]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UAT OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6UAT FirstGlance]. <br>
-	~~Description~~:	+	</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=6uat FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6uat OCA], [http://pdbe.org/6uat PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6uat RCSB], [http://www.ebi.ac.uk/pdbsum/6uat PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6uat ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Cabral L]]
		+	[[Category: Costa PACR]]
		+	[[Category: Murakami MT]]
		+	[[Category: Santos CR]]
		+	[[Category: Vieira PS]]

OCA at 13:46, 20 November 2019

2019-11-20T13:46:14Z

←Older revision		Revision as of 13:46, 20 November 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6uat is ON HOLD	+	The entry 6uat is ON HOLD until Paper Publication

	Authors:		Authors:

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

2019-10-02T08:30:07Z

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

←Older revision

Revision as of 08:30, 2 October 2019

OCA: New page: '''Unreleased structure''' The entry 6uat is ON HOLD Authors: Description: Category: Unreleased Structures

2019-10-02T08:30:05Z

New page: '''Unreleased structure''' The entry 6uat is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6uat is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]