4ggp - Revision history

OCA at 06:55, 26 October 2022

OCA — Wed, 26 Oct 2022 06:55:44 GMT

←Older revision		Revision as of 06:55, 26 October 2022
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	==Crystal Structure of Selenomethionine containing Trans-2-Enoyl-CoA Reductase from Treponema denticola==		==Crystal Structure of Selenomethionine containing Trans-2-Enoyl-CoA Reductase from Treponema denticola==
-	<StructureSection load='4ggp' size='340' side='right' caption='[[4ggp]], [[Resolution\|resolution]] 2.05Å' scene=''>	+	<StructureSection load='4ggp' size='340' side='right'caption='[[4ggp]], [[Resolution\|resolution]] 2.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4ggp]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Trede Trede~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GGP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4GGP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4ggp]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Treponema_denticola_ATCC_35405 Treponema denticola ATCC 35405]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GGP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4GGP FirstGlance]. <br>
-	</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>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4ggo\|4ggo]]</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=4ggp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ggp OCA], [https://pdbe.org/4ggp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ggp RCSB], [https://www.ebi.ac.uk/pdbsum/4ggp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ggp ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TDE_0597 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=243275 TREDE])</td></tr>~~	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Acetoacetyl-CoA_reductase Acetoacetyl-CoA reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.36 1.1.1.36] </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=4ggp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ggp OCA], [~~http~~://pdbe.org/4ggp PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4ggp RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4ggp PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4ggp ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~Y597_TREDE Y597_TREDE~~]~~] Probable reductase~~ (~~By similarity~~).	+	[https://www.uniprot.org/uniprot/FABV_TREDE FABV_TREDE] Involved in the fatty acid synthesis (FAS II). Catalyzes the reduction of the carbon-carbon double bond of crotonyl-CoA to yield butyryl-CoA. In vitro it can also use hexenoyl-CoA and dodecenoyl-CoA as substrates (PubMed:22906002).<ref>PMID:17382934</ref> <ref>PMID:22906002</ref> <ref>PMID:23050861</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 25:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Acetoacetyl-CoA reductase~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Trede~~]]	+	[[Category: Treponema denticola ATCC 35405]]
-	[[Category: Bond-Watts~~, B B~~]]	+	[[Category: Bond-Watts BB]]
-	[[Category: Chang~~, M C.Y~~]]	+	[[Category: Chang MCY]]
-	[[Category: Weeks~~, A M]]~~	+	[[Category: Weeks AM]]
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Reductase]]~~	+
-	~~[[Category: Rossmann fold~~]]	+

OCA at 19:48, 15 December 2016

OCA — Thu, 15 Dec 2016 19:48:52 GMT

←Older revision		Revision as of 19:48, 15 December 2016
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		+
	==Crystal Structure of Selenomethionine containing Trans-2-Enoyl-CoA Reductase from Treponema denticola==		==Crystal Structure of Selenomethionine containing Trans-2-Enoyl-CoA Reductase from Treponema denticola==
	<StructureSection load='4ggp' size='340' side='right' caption='[[4ggp]], [[Resolution\|resolution]] 2.05Å' scene=''>		<StructureSection load='4ggp' size='340' side='right' caption='[[4ggp]], [[Resolution\|resolution]] 2.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4ggp]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Treponema_denticola_atcc_35405 Treponema denticola atcc 35405~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GGP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4GGP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4ggp]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Trede Trede]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GGP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4GGP FirstGlance]. <br>
	</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>		</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='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4ggo\|4ggo]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4ggo\|4ggo]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TDE_0597 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=243275 ~~Treponema denticola ATCC 35405~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TDE_0597 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=243275 TREDE])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Acetoacetyl-CoA_reductase Acetoacetyl-CoA reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.36 1.1.1.36] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Acetoacetyl-CoA_reductase Acetoacetyl-CoA reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.36 1.1.1.36] </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=4ggp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ggp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ggp RCSB], [http://www.ebi.ac.uk/pdbsum/4ggp PDBsum]</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=4ggp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ggp OCA], [http://pdbe.org/4ggp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ggp RCSB], [http://www.ebi.ac.uk/pdbsum/4ggp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ggp ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/Y597_TREDE Y597_TREDE]] Probable reductase (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 17:		Line 20:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4ggp" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
Line 22:		Line 26:
	</StructureSection>		</StructureSection>
	[[Category: Acetoacetyl-CoA reductase]]		[[Category: Acetoacetyl-CoA reductase]]
-	[[Category: ~~Treponema denticola atcc 35405~~]]	+	[[Category: Trede]]
	[[Category: Bond-Watts, B B]]		[[Category: Bond-Watts, B B]]
	[[Category: Chang, M C.Y]]		[[Category: Chang, M C.Y]]

OCA at 09:04, 10 December 2014

OCA — Wed, 10 Dec 2014 09:04:28 GMT

←Older revision		Revision as of 09:04, 10 December 2014
Line 1:		Line 1:
-	[[~~Image:~~4ggp.~~png~~\|~~left~~\|~~200px~~]]	+	==Crystal Structure of Selenomethionine containing Trans-2-Enoyl-CoA Reductase from Treponema denticola==
		+	<StructureSection load='4ggp' size='340' side='right' caption='[[4ggp]], [[Resolution\|resolution]] 2.05Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4ggp]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Treponema_denticola_atcc_35405 Treponema denticola atcc 35405]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GGP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4GGP FirstGlance]. <br>
		+	</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='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4ggo\|4ggo]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TDE_0597 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=243275 Treponema denticola ATCC 35405])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Acetoacetyl-CoA_reductase Acetoacetyl-CoA reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.36 1.1.1.36] </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=4ggp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ggp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ggp RCSB], [http://www.ebi.ac.uk/pdbsum/4ggp PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The production of fatty acids is an important cellular pathway for both cellular function and the development of engineered pathways for the synthesis of advanced biofuels. Despite the conserved reaction chemistry of various fatty acid synthase systems, the individual isozymes that catalyze these steps are quite diverse in their structural and biochemical features and are important for controlling differences at the cellular level. One of the key steps in the fatty acid elongation cycle is the enoyl-ACP (CoA) reductase function that drives the equilibrium forward toward chain extension. In this work, we report the structural and biochemical characterization of the trans-enoyl-CoA reductase from Treponema denticola (tdTer), which has been utilized for the engineering of synthetic biofuel pathways with an order of magnitude increase in product titers compared to those of pathways constructed with other enoyl-CoA reductase components. The crystal structure of tdTer was determined to 2.00 A resolution and shows that the Ter enzymes are distinct from members of the FabI, FabK, and FabL families but are highly similar to members of the FabV family. Further biochemical studies show that tdTer uses an ordered bi-bi mechanism initiated by binding of the NADH redox cofactor, which is consistent with the behavior of other enoyl-ACP (CoA) reductases. Mutagenesis of the substrate binding loop, characterization of enzyme activity with respect to crotonyl-CoA, hexenoyl-CoA, and dodecenoyl-CoA substrates, and product inhibition by lauroyl-CoA suggest that this region is important for controlling chain length specificity, with the major portal playing a more important role for longer chain length substrates.

-	~~{{STRUCTURE_4ggp\| PDB=4ggp \| SCENE= }}~~	+	Biochemical and Structural Characterization of the trans-Enoyl-CoA Reductase from Treponema denticola.,Bond-Watts BB, Weeks AM, Chang MC Biochemistry. 2012 Aug 20. PMID:22906002<ref>PMID:22906002</ref>

-	~~===Crystal Structure~~ of ~~Selenomethionine containing Trans-2-Enoyl-CoA Reductase from Treponema denticola===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_22906002}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[4ggp]] is a 4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Treponema_denticola_atcc_35405 Treponema denticola atcc 35405]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=4GGP OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:022906002<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Acetoacetyl-CoA reductase]]		[[Category: Acetoacetyl-CoA reductase]]
	[[Category: Treponema denticola atcc 35405]]		[[Category: Treponema denticola atcc 35405]]
-	[[Category: Bond-Watts, B B.]]	+	[[Category: Bond-Watts, B B]]
-	[[Category: Chang, M C.Y.]]	+	[[Category: Chang, M C.Y]]
-	[[Category: Weeks, A M.]]	+	[[Category: Weeks, A M]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
	[[Category: Reductase]]		[[Category: Reductase]]
	[[Category: Rossmann fold]]		[[Category: Rossmann fold]]

OCA at 14:54, 28 November 2012

OCA — Wed, 28 Nov 2012 14:54:58 GMT

←Older revision		Revision as of 14:54, 28 November 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[4ggp]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GGP OCA].	+	[[4ggp]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Treponema_denticola_atcc_35405 Treponema denticola atcc 35405]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GGP OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:022906002</ref><references group="xtra"/>		<ref group="xtra">PMID:022906002</ref><references group="xtra"/>
	[[Category: Acetoacetyl-CoA reductase]]		[[Category: Acetoacetyl-CoA reductase]]
		+	[[Category: Treponema denticola atcc 35405]]
	[[Category: Bond-Watts, B B.]]		[[Category: Bond-Watts, B B.]]
	[[Category: Chang, M C.Y.]]		[[Category: Chang, M C.Y.]]

OCA at 06:17, 10 October 2012

OCA — Wed, 10 Oct 2012 06:17:10 GMT

←Older revision		Revision as of 06:17, 10 October 2012
Line 1:		Line 1:
-	[[Image:4ggp.~~jpg~~\|left\|200px]]	+	[[Image:4ggp.png\|left\|200px]]

	{{STRUCTURE_4ggp\| PDB=4ggp \| SCENE= }}		{{STRUCTURE_4ggp\| PDB=4ggp \| SCENE= }}
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[4ggp]] is a 4 chain structure ~~with sequence from [http://en.wikipedia.org/wiki/Treponema_denticola Treponema denticola]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GGP OCA].	+	[[4ggp]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GGP OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:022906002</ref><references group="xtra"/>		<ref group="xtra">PMID:022906002</ref><references group="xtra"/>
	[[Category: Acetoacetyl-CoA reductase]]		[[Category: Acetoacetyl-CoA reductase]]
-	[[Category: Treponema denticola]]
	[[Category: Bond-Watts, B B.]]		[[Category: Bond-Watts, B B.]]
	[[Category: Chang, M C.Y.]]		[[Category: Chang, M C.Y.]]

OCA at 05:04, 29 August 2012

OCA — Wed, 29 Aug 2012 05:04:35 GMT

←Older revision		Revision as of 05:04, 29 August 2012
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:4ggp.jpg\|left\|200px]]

-	~~The entry~~ 4ggp ~~is ON HOLD~~	+	{{STRUCTURE_4ggp\| PDB=4ggp \| SCENE= }}

-	~~Authors: Bond~~-~~Watts, B.B., Weeks, A.M., Chang, M.C.Y.~~	+	===Crystal Structure of Selenomethionine containing Trans-2-Enoyl-CoA Reductase from Treponema denticola===

-	~~Description: Crystal~~ Structure ~~of Selenomethionine containing Trans~~-~~2-Enoyl~~-CoA ~~Reductase from~~ Treponema denticola	+	{{ABSTRACT_PUBMED_22906002}}
		+
		+	==About this Structure==
		+	[[4ggp]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Treponema_denticola Treponema denticola]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GGP OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:022906002</ref><references group="xtra"/>
		+	[[Category: Acetoacetyl-CoA reductase]]
		+	[[Category: Treponema denticola]]
		+	[[Category: Bond-Watts, B B.]]
		+	[[Category: Chang, M C.Y.]]
		+	[[Category: Weeks, A M.]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Reductase]]
		+	[[Category: Rossmann fold]]

OCA: Protected "4ggp" [edit=sysop:move=sysop]

OCA — Wed, 15 Aug 2012 05:25:57 GMT

Protected "4ggp" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:25, 15 August 2012

OCA: New page: '''Unreleased structure''' The entry 4ggp is ON HOLD Authors: Bond-Watts, B.B., Weeks, A.M., Chang, M.C.Y. Description: Crystal Structure of Selenomethionine containing Trans-2-Enoyl-C...

OCA — Wed, 15 Aug 2012 05:25:56 GMT

New page: '''Unreleased structure''' The entry 4ggp is ON HOLD Authors: Bond-Watts, B.B., Weeks, A.M., Chang, M.C.Y. Description: Crystal Structure of Selenomethionine containing Trans-2-Enoyl-C...

New page

'''Unreleased structure'''

The entry 4ggp is ON HOLD

Authors: Bond-Watts, B.B., Weeks, A.M., Chang, M.C.Y.

Description: Crystal Structure of Selenomethionine containing Trans-2-Enoyl-CoA Reductase from Treponema denticola