5ncb - Revision history

OCA at 11:22, 3 January 2024

OCA — Wed, 03 Jan 2024 11:22:11 GMT

←Older revision		Revision as of 11:22, 3 January 2024
Line 3:		Line 3:
	<StructureSection load='5ncb' size='340' side='right'caption='[[5ncb]], [[Resolution\|resolution]] 1.44Å' scene=''>		<StructureSection load='5ncb' size='340' side='right'caption='[[5ncb]], [[Resolution\|resolution]] 1.44Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ncb]] 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=5NCB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5NCB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ncb]] 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=5NCB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5NCB 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]] 1.44Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~MSE~~:~~SELENOMETHIONINE~~'>~~MSE~~</scene><~~/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>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<~~tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">WP_020419855 ([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'>[https://proteopedia.org/fgij/fg.htm?mol=5ncb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ncb OCA], [https://pdbe.org/5ncb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ncb RCSB], [https://www.ebi.ac.uk/pdbsum/5ncb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ncb 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=5ncb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ncb OCA], [https://pdbe.org/5ncb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ncb RCSB], [https://www.ebi.ac.uk/pdbsum/5ncb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ncb ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A076MY51_AMYME A0A076MY51_AMYME]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 25:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Amys7~~]]	+	[[Category: Amycolatopsis sp. ATCC 39116]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Beckham~~, G T~~]]	+	[[Category: Beckham GT]]
-	[[Category: Johnson~~, C W~~]]	+	[[Category: Johnson CW]]
-	[[Category: Mallinson~~, S J.B~~]]	+	[[Category: Mallinson SJB]]
-	[[Category: McGeehan~~, J E~~]]	+	[[Category: McGeehan JE]]
-	[[Category: Neidle~~, E L]]~~	+	[[Category: Neidle EL]]
-	~~[[Category: Amycolatopsis]]~~	+
-	~~[[Category: Cyp255a]]~~	+
-	~~[[Category: Cytochrome]]~~	+
-	~~[[Category: Guaiacol]]~~	+
-	~~[[Category: Haem]]~~	+
-	~~[[Category: Heme]]~~	+
-	~~[[Category: Lignin]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: P450~~]]	+

OCA at 10:55, 30 March 2022

OCA — Wed, 30 Mar 2022 10:55:54 GMT

←Older revision		Revision as of 10:55, 30 March 2022
Line 1:		Line 1:

	==Crystal structure of Amycolatopsis cytochrome P450 GcoA in complex with guaiacol.==		==Crystal structure of Amycolatopsis cytochrome P450 GcoA in complex with guaiacol.==
-	<StructureSection load='5ncb' size='340' side='right' caption='[[5ncb]], [[Resolution\|resolution]] 1.44Å' scene=''>	+	<StructureSection load='5ncb' size='340' side='right'caption='[[5ncb]], [[Resolution\|resolution]] 1.44Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ncb]] 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=5NCB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5NCB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ncb]] 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=5NCB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5NCB 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='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">WP_020419855 ([~~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">WP_020419855 ([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=5ncb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ncb OCA], [~~http~~://pdbe.org/5ncb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5ncb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5ncb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5ncb 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=5ncb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ncb OCA], [https://pdbe.org/5ncb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ncb RCSB], [https://www.ebi.ac.uk/pdbsum/5ncb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ncb ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 18:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 5ncb" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5ncb" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Cytochrome P450 3D structures\|Cytochrome P450 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 23:		Line 26:
	</StructureSection>		</StructureSection>
	[[Category: Amys7]]		[[Category: Amys7]]
		+	[[Category: Large Structures]]
	[[Category: Beckham, G T]]		[[Category: Beckham, G T]]
	[[Category: Johnson, C W]]		[[Category: Johnson, C W]]

OCA at 06:04, 11 July 2018

OCA — Wed, 11 Jul 2018 06:04:19 GMT

←Older revision		Revision as of 06:04, 11 July 2018
Line 3:		Line 3:
	<StructureSection load='5ncb' size='340' side='right' caption='[[5ncb]], [[Resolution\|resolution]] 1.44Å' scene=''>		<StructureSection load='5ncb' size='340' side='right' caption='[[5ncb]], [[Resolution\|resolution]] 1.44Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ncb]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NCB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NCB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ncb]] 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=5NCB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NCB 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='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">WP_020419855 ([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=5ncb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ncb OCA], [http://pdbe.org/5ncb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ncb RCSB], [http://www.ebi.ac.uk/pdbsum/5ncb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ncb 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=5ncb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ncb OCA], [http://pdbe.org/5ncb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ncb RCSB], [http://www.ebi.ac.uk/pdbsum/5ncb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ncb ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Microbial aromatic catabolism offers a promising approach to convert lignin, a vast source of renewable carbon, into useful products. Aryl-O-demethylation is an essential biochemical reaction to ultimately catabolize coniferyl and sinapyl lignin-derived aromatic compounds, and is often a key bottleneck for both native and engineered bioconversion pathways. Here, we report the comprehensive characterization of a promiscuous P450 aryl-O-demethylase, consisting of a cytochrome P450 protein from the family CYP255A (GcoA) and a three-domain reductase (GcoB) that together represent a new two-component P450 class. Though originally described as converting guaiacol to catechol, we show that this system efficiently demethylates both guaiacol and an unexpectedly wide variety of lignin-relevant monomers. Structural, biochemical, and computational studies of this novel two-component system elucidate the mechanism of its broad substrate specificity, presenting it as a new tool for a critical step in biological lignin conversion.
		+
		+	A promiscuous cytochrome P450 aromatic O-demethylase for lignin bioconversion.,Mallinson SJB, Machovina MM, Silveira RL, Garcia-Borras M, Gallup N, Johnson CW, Allen MD, Skaf MS, Crowley MF, Neidle EL, Houk KN, Beckham GT, DuBois JL, McGeehan JE Nat Commun. 2018 Jun 27;9(1):2487. doi: 10.1038/s41467-018-04878-2. PMID:29950589<ref>PMID:29950589</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5ncb" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Amys7]]
	[[Category: Beckham, G T]]		[[Category: Beckham, G T]]
	[[Category: Johnson, C W]]		[[Category: Johnson, C W]]

OCA at 07:02, 4 July 2018

OCA — Wed, 04 Jul 2018 07:02:26 GMT

←Older revision		Revision as of 07:02, 4 July 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5ncb ~~is ON HOLD until Sep 03 2019~~	+	==Crystal structure of Amycolatopsis cytochrome P450 GcoA in complex with guaiacol.==
-		+	<StructureSection load='5ncb' size='340' side='right' caption='[[5ncb]], [[Resolution\|resolution]] 1.44Å' scene=''>
-	~~Authors~~: ~~Mallinson, S~~.J.B.~~, Johnson, C~~.W., ~~Neidle, E~~.L., ~~Beckham, G~~.T., ~~McGeehan~~, J.E.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5ncb]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NCB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NCB FirstGlance]. <br>
-	~~Description~~: ~~Crystal structure of Amycolatopsis cytochrome P450 GcoA in complex with guaiacol~~.	+	</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='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	[[Category: ~~Mcgeehan~~, ~~J.E~~]]	+	<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=5ncb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ncb OCA], [http://pdbe.org/5ncb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ncb RCSB], [http://www.ebi.ac.uk/pdbsum/5ncb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ncb ProSAT]</span></td></tr>
-	[[Category: Johnson, C.W]]	+	</table>
-	[[Category: Mallinson, S.J.B]]	+	__TOC__
-	[[Category: Neidle, E.L]]	+	</StructureSection>
-	[[Category: ~~Beckham, G.T~~]]	+	[[Category: Beckham, G T]]
		+	[[Category: Johnson, C W]]
		+	[[Category: Mallinson, S J.B]]
		+	[[Category: McGeehan, J E]]
		+	[[Category: Neidle, E L]]
		+	[[Category: Amycolatopsis]]
		+	[[Category: Cyp255a]]
		+	[[Category: Cytochrome]]
		+	[[Category: Guaiacol]]
		+	[[Category: Haem]]
		+	[[Category: Heme]]
		+	[[Category: Lignin]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: P450]]

OCA at 06:58, 10 January 2018

OCA — Wed, 10 Jan 2018 06:58:53 GMT

←Older revision		Revision as of 06:58, 10 January 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5ncb is ON HOLD until ~~Mar~~ 03 2019	+	The entry 5ncb is ON HOLD until Sep 03 2019

	Authors: Mallinson, S.J.B., Johnson, C.W., Neidle, E.L., Beckham, G.T., McGeehan, J.E.		Authors: Mallinson, S.J.B., Johnson, C.W., Neidle, E.L., Beckham, G.T., McGeehan, J.E.

OCA at 09:53, 5 April 2017

OCA — Wed, 05 Apr 2017 09:53:27 GMT

←Older revision		Revision as of 09:53, 5 April 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5ncb is ON HOLD	+	The entry 5ncb is ON HOLD until Mar 03 2019

	Authors: Mallinson, S.J.B., Johnson, C.W., Neidle, E.L., Beckham, G.T., McGeehan, J.E.		Authors: Mallinson, S.J.B., Johnson, C.W., Neidle, E.L., Beckham, G.T., McGeehan, J.E.

OCA: Protected "5ncb" [edit=sysop:move=sysop]

OCA — Wed, 15 Mar 2017 17:22:40 GMT

Protected "5ncb" [edit=sysop:move=sysop]

←Older revision

Revision as of 17:22, 15 March 2017

OCA: New page: '''Unreleased structure''' The entry 5ncb is ON HOLD Authors: Mallinson, S.J.B., Johnson, C.W., Neidle, E.L., Beckham, G.T., McGeehan, J.E. Description: Crystal structure of Amycolatop...

OCA — Wed, 15 Mar 2017 17:22:38 GMT

New page: '''Unreleased structure''' The entry 5ncb is ON HOLD Authors: Mallinson, S.J.B., Johnson, C.W., Neidle, E.L., Beckham, G.T., McGeehan, J.E. Description: Crystal structure of Amycolatop...

New page

'''Unreleased structure'''

The entry 5ncb is ON HOLD

Authors: Mallinson, S.J.B., Johnson, C.W., Neidle, E.L., Beckham, G.T., McGeehan, J.E.

Description: Crystal structure of Amycolatopsis cytochrome P450 GcoA in complex with guaiacol.
[[Category: Unreleased Structures]]
[[Category: Mcgeehan, J.E]]
[[Category: Johnson, C.W]]
[[Category: Mallinson, S.J.B]]
[[Category: Neidle, E.L]]
[[Category: Beckham, G.T]]