6hqo - Revision history

OCA at 11:37, 24 January 2024

OCA — Wed, 24 Jan 2024 11:37:29 GMT

←Older revision		Revision as of 11:37, 24 January 2024
Line 3:		Line 3:
	<StructureSection load='6hqo' size='340' side='right'caption='[[6hqo]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='6hqo' size='340' side='right'caption='[[6hqo]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6hqo]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Amys7 Amys7~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HQO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6HQO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6hqo]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Amycolatopsis_sp._ATCC_39116 Amycolatopsis sp. ATCC 39116]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HQO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6HQO FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>~~, ~~<scene name='pdbligand=JZ3:GUAIACOL'>JZ3</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]] 1.7Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~AMETH_3834 ([https~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=385957 AMYS7])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=JZ3:GUAIACOL'>JZ3</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=6hqo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hqo OCA], [https://pdbe.org/6hqo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6hqo RCSB], [https://www.ebi.ac.uk/pdbsum/6hqo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6hqo 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=6hqo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hqo OCA], [https://pdbe.org/6hqo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6hqo RCSB], [https://www.ebi.ac.uk/pdbsum/6hqo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6hqo ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/GCOA_AMYS7 GCOA_AMYS7] Part of a two-component P450 system that efficiently O-demethylates diverse aromatic substrates such as guaiacol and a wide variety of lignin-derived monomers. Is likely involved in lignin degradation, allowing Amycolatopsis sp. ATCC 39116 to catabolize plant biomass. GcoA binds and processes the substrate with electrons supplied by the GcoB subunit.<ref>PMID:29950589</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Amys7~~]]	+	[[Category: Amycolatopsis sp. ATCC 39116]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Allen~~, M D~~]]	+	[[Category: Allen MD]]
-	[[Category: Beckham~~, G T~~]]	+	[[Category: Beckham GT]]
-	[[Category: Hinchen~~, D J~~]]	+	[[Category: Hinchen DJ]]
-	[[Category: Johnson~~, C W~~]]	+	[[Category: Johnson CW]]
-	[[Category: Mallinson~~, S J.B~~]]	+	[[Category: Mallinson SJB]]
-	[[Category: McGeehan~~, J E]]~~	+	[[Category: McGeehan JE]]
-	~~[[Category: Cytochrome]]~~	+
-	~~[[Category: Lignin]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: P450~~]]	+

OCA at 11:01, 30 March 2022

OCA — Wed, 30 Mar 2022 11:01:57 GMT

←Older revision		Revision as of 11:01, 30 March 2022
Line 3:		Line 3:
	<StructureSection load='6hqo' size='340' side='right'caption='[[6hqo]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='6hqo' size='340' side='right'caption='[[6hqo]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6hqo]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Amys7 Amys7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HQO OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6HQO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6hqo]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Amys7 Amys7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HQO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6HQO FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=JZ3:GUAIACOL'>JZ3</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=JZ3:GUAIACOL'>JZ3</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AMETH_3834 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=385957 AMYS7])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AMETH_3834 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=385957 AMYS7])</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=6hqo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hqo OCA], [~~http~~://pdbe.org/6hqo PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6hqo RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6hqo PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6hqo 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=6hqo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hqo OCA], [https://pdbe.org/6hqo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6hqo RCSB], [https://www.ebi.ac.uk/pdbsum/6hqo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6hqo ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 17:		Line 17:
	</div>		</div>
	<div class="pdbe-citations 6hqo" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6hqo" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Cytochrome P450 3D structures\|Cytochrome P450 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 06:23, 10 July 2019

OCA — Wed, 10 Jul 2019 06:23:28 GMT

←Older revision		Revision as of 06:23, 10 July 2019
Line 3:		Line 3:
	<StructureSection load='6hqo' size='340' side='right'caption='[[6hqo]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='6hqo' size='340' side='right'caption='[[6hqo]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6hqo]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HQO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HQO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6hqo]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Amys7 Amys7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HQO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HQO FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=JZ3:GUAIACOL'>JZ3</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=JZ3:GUAIACOL'>JZ3</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AMETH_3834 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=385957 AMYS7])</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=6hqo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hqo OCA], [http://pdbe.org/6hqo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hqo RCSB], [http://www.ebi.ac.uk/pdbsum/6hqo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hqo 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=6hqo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hqo OCA], [http://pdbe.org/6hqo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hqo RCSB], [http://www.ebi.ac.uk/pdbsum/6hqo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hqo ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Microbial conversion of aromatic compounds is an emerging and promising strategy for valorization of the plant biopolymer lignin. A critical and often rate-limiting reaction in aromatic catabolism is O-aryl-demethylation of the abundant aromatic methoxy groups in lignin to form diols, which enables subsequent oxidative aromatic ring-opening. Recently, a cytochrome P450 system, GcoAB, was discovered to demethylate guaiacol (2-methoxyphenol), which can be produced from coniferyl alcohol-derived lignin, to form catechol. However, native GcoAB has minimal ability to demethylate syringol (2,6-dimethoxyphenol), the analogous compound that can be produced from sinapyl alcohol-derived lignin. Despite the abundance of sinapyl alcohol-based lignin in plants, no pathway for syringol catabolism has been reported to date. Here we used structure-guided protein engineering to enable microbial syringol utilization with GcoAB. Specifically, a phenylalanine residue (GcoA-F169) interferes with the binding of syringol in the active site, and on mutation to smaller amino acids, efficient syringol O-demethylation is achieved. Crystallography indicates that syringol adopts a productive binding pose in the variant, which molecular dynamics simulations trace to the elimination of steric clash between the highly flexible side chain of GcoA-F169 and the additional methoxy group of syringol. Finally, we demonstrate in vivo syringol turnover in Pseudomonas putida KT2440 with the GcoA-F169A variant. Taken together, our findings highlight the significant potential and plasticity of cytochrome P450 aromatic O-demethylases in the biological conversion of lignin-derived aromatic compounds.
		+
		+	Enabling microbial syringol conversion through structure-guided protein engineering.,Machovina MM, Mallinson SJB, Knott BC, Meyers AW, Garcia-Borras M, Bu L, Gado JE, Oliver A, Schmidt GP, Hinchen DJ, Crowley MF, Johnson CW, Neidle EL, Payne CM, Houk KN, Beckham GT, McGeehan JE, DuBois JL Proc Natl Acad Sci U S A. 2019 Jun 24. pii: 1820001116. doi:, 10.1073/pnas.1820001116. PMID:31235604<ref>PMID:31235604</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6hqo" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Amys7]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Allen, M D]]		[[Category: Allen, M D]]

OCA at 05:48, 3 July 2019

OCA — Wed, 03 Jul 2019 05:48:10 GMT

←Older revision		Revision as of 05:48, 3 July 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6hqo ~~is ON HOLD~~	+	==Crystal structure of GcoA F169S bound to guaiacol==
-		+	<StructureSection load='6hqo' size='340' side='right'caption='[[6hqo]], [[Resolution\|resolution]] 1.70Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6hqo]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HQO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HQO FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=JZ3:GUAIACOL'>JZ3</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<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=6hqo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hqo OCA], [http://pdbe.org/6hqo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hqo RCSB], [http://www.ebi.ac.uk/pdbsum/6hqo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hqo ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Allen, M D]]
		+	[[Category: Beckham, G T]]
		+	[[Category: Hinchen, D J]]
		+	[[Category: Johnson, C W]]
		+	[[Category: Mallinson, S J.B]]
		+	[[Category: McGeehan, J E]]
		+	[[Category: Cytochrome]]
		+	[[Category: Lignin]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: P450]]

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

OCA — Wed, 03 Oct 2018 06:15:56 GMT

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

←Older revision

Revision as of 06:15, 3 October 2018

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

OCA — Wed, 03 Oct 2018 06:15:54 GMT

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

New page

'''Unreleased structure'''

The entry 6hqo is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]