6ehn - Revision history

OCA at 12:19, 9 May 2024

OCA — Thu, 09 May 2024 12:19:28 GMT

←Older revision		Revision as of 12:19, 9 May 2024
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	<StructureSection load='6ehn' size='340' side='right'caption='[[6ehn]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='6ehn' size='340' side='right'caption='[[6ehn]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ehn]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6EHN OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6EHN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ehn]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Unidentified_prokaryotic_organism Unidentified prokaryotic organism]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6EHN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6EHN FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</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=6ehn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ehn OCA], [~~http~~://pdbe.org/6ehn PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6ehn RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6ehn PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6ehn ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</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=6ehn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ehn OCA], [https://pdbe.org/6ehn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ehn RCSB], [https://www.ebi.ac.uk/pdbsum/6ehn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ehn ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/CE15_UNKP CE15_UNKP]] Displays some glucuronoyl esterase activity in vitro, since it is able to hydrolyze methyl 4-O-methyl-D-glucopyranosyluronate, allyl D-glucuronate, benzyl D-glucuronate and D-glucuronic acid methyl ester. However, esters of glucuronic acid are probably not its biological substrate, as they are not present in the marine environment. Can also hydrolyze a range of other esters, including p-nitrophenyl acetate. More likely biologically-relevant substrates for MZ0003 and other marine bacterial CE15s are algal cell wall polysaccharides, as these would be readily available in this environment and could be used as energy sources.<ref>PMID:27433797</ref>	+	[https://www.uniprot.org/uniprot/CE15_UNKP CE15_UNKP] Displays some glucuronoyl esterase activity in vitro, since it is able to hydrolyze methyl 4-O-methyl-D-glucopyranosyluronate, allyl D-glucuronate, benzyl D-glucuronate and D-glucuronic acid methyl ester. However, esters of glucuronic acid are probably not its biological substrate, as they are not present in the marine environment. Can also hydrolyze a range of other esters, including p-nitrophenyl acetate. More likely biologically-relevant substrates for MZ0003 and other marine bacterial CE15s are algal cell wall polysaccharides, as these would be readily available in this environment and could be used as energy sources.<ref>PMID:27433797</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Gani, O]]~~	+	[[Category: Unidentified prokaryotic organism]]
-	~~[[Category: Helland, R~~]]	+	[[Category: De Santi C]]
-	[[Category: Santi, C De]]	+	[[Category: Gani O]]
-	[[Category: ~~Williamson, A K~~]]	+	[[Category: Helland R]]
-	[[Category: ~~Esterase~~]]	+	[[Category: Williamson AK]]
-	[[Category: ~~Hydrolase]]~~	+
-	~~[[Category: Protein structure~~]]	+

OCA at 09:10, 11 November 2020

OCA — Wed, 11 Nov 2020 09:10:44 GMT

←Older revision		Revision as of 09:10, 11 November 2020
Line 1:		Line 1:

	==Structural insight into a promiscuous CE15 esterase from the marine bacterial metagenome==		==Structural insight into a promiscuous CE15 esterase from the marine bacterial metagenome==
-	<StructureSection load='6ehn' size='340' side='right' caption='[[6ehn]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='6ehn' size='340' side='right'caption='[[6ehn]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ehn]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6EHN OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6EHN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ehn]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6EHN OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6EHN FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></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=6ehn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ehn OCA], [http://pdbe.org/6ehn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ehn RCSB], [http://www.ebi.ac.uk/pdbsum/6ehn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ehn ProSAT]</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=6ehn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ehn OCA], [http://pdbe.org/6ehn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ehn RCSB], [http://www.ebi.ac.uk/pdbsum/6ehn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ehn ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Gani, O]]		[[Category: Gani, O]]
	[[Category: Helland, R]]		[[Category: Helland, R]]

OCA at 07:43, 21 March 2018

OCA — Wed, 21 Mar 2018 07:43:03 GMT

←Older revision		Revision as of 07:43, 21 March 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6ehn is ~~ON HOLD~~	+	==Structural insight into a promiscuous CE15 esterase from the marine bacterial metagenome==
		+	<StructureSection load='6ehn' size='340' side='right' caption='[[6ehn]], [[Resolution\|resolution]] 1.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6ehn]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6EHN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6EHN FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></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=6ehn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ehn OCA], [http://pdbe.org/6ehn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ehn RCSB], [http://www.ebi.ac.uk/pdbsum/6ehn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ehn ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CE15_UNKP CE15_UNKP]] Displays some glucuronoyl esterase activity in vitro, since it is able to hydrolyze methyl 4-O-methyl-D-glucopyranosyluronate, allyl D-glucuronate, benzyl D-glucuronate and D-glucuronic acid methyl ester. However, esters of glucuronic acid are probably not its biological substrate, as they are not present in the marine environment. Can also hydrolyze a range of other esters, including p-nitrophenyl acetate. More likely biologically-relevant substrates for MZ0003 and other marine bacterial CE15s are algal cell wall polysaccharides, as these would be readily available in this environment and could be used as energy sources.<ref>PMID:27433797</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The family 15 carbohydrate esterase (CE15) MZ0003, which derives from a marine Arctic metagenome, has a broader substrate scope than other members of this family. Here we report the crystal structure of MZ0003, which reveals that residues comprising the catalytic triad differ from previously-characterized fungal homologs, and resolves three large loop regions that are unique to this bacterial sub-clade. The catalytic triad of the bacterial CE15, which includes Asp 332 as its third member, closely resembles that of family 1 carbohydrate esterases (CE1), despite the overall lower structural similarity with members of this family. Two of the three loop regions form a subdomain that deepens the active site pocket and includes several basic residues that contribute to the high positive charge surrounding the active site. Docking simulations predict specific interactions with the sugar moiety of glucuronic-acid substrates, and with aromatically-substituted derivatives that serve as model compounds for the lignin-carbohydrate complex of plant cell walls. Molecular dynamics simulations indicate considerable flexibility of the sub-domain in the substrate-bound form, suggesting plasticity to accommodate different substrates is possible. The findings from this first reported structure of a bacterial member of the CE15 family provide insight into the basis of its broader substrate specificity.

-	~~Authors~~:	+	Structural insight into a CE15 esterase from the marine bacterial metagenome.,De Santi C, Gani OA, Helland R, Williamson A Sci Rep. 2017 Dec 8;7(1):17278. doi: 10.1038/s41598-017-17677-4. PMID:29222424<ref>PMID:29222424</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 6ehn" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Gani, O]]
		+	[[Category: Helland, R]]
		+	[[Category: Santi, C De]]
		+	[[Category: Williamson, A K]]
		+	[[Category: Esterase]]
		+	[[Category: Hydrolase]]
		+	[[Category: Protein structure]]

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

OCA — Wed, 27 Sep 2017 17:10:43 GMT

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

←Older revision

Revision as of 17:10, 27 September 2017

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

OCA — Wed, 27 Sep 2017 17:10:42 GMT

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

New page

'''Unreleased structure'''

The entry 6ehn is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]