5flg - Revision history

OCA at 06:56, 19 July 2023

OCA — Wed, 19 Jul 2023 06:56:07 GMT

←Older revision		Revision as of 06:56, 19 July 2023
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	<StructureSection load='5flg' size='340' side='right'caption='[[5flg]], [[Resolution\|resolution]] 2.04Å' scene=''>		<StructureSection load='5flg' size='340' side='right'caption='[[5flg]], [[Resolution\|resolution]] 2.04Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5flg]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"vibrio_subtilis"_ehrenberg_1835 "vibrio~~ subtilis~~" ehrenberg 1835~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FLG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5FLG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5flg]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FLG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5FLG FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID~~-~~ADENYLATE+ESTER'>ANP</scene>~~, ~~<scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PML:PIMELIC+ACID'>PML</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]] 2.04Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[5fll\|5fll]], [[5fm0\|5fm0]]~~<~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PML:PIMELIC+ACID'>PML</scene></td></tr>
-	<~~tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[http://en.wikipedia.org/wiki/6-carboxyhexanoate--CoA_ligase 6-carboxyhexanoate--CoA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.2.1.14 6.2.1.14]~~ </~~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=5flg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5flg OCA], [https://pdbe.org/5flg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5flg RCSB], [https://www.ebi.ac.uk/pdbsum/5flg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5flg 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=5flg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5flg OCA], [~~http~~://pdbe.org/5flg PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5flg RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5flg PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5flg ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/BIOW_BACSU BIOW_BACSU]] Catalyzes the transformation of pimelate into pimeloyl-CoA with concomitant hydrolysis of ATP to AMP.	+	[https://www.uniprot.org/uniprot/BIOW_BACSU BIOW_BACSU] Catalyzes the transformation of pimelate into pimeloyl-CoA with concomitant hydrolysis of ATP to AMP.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Vibrio~~ subtilis ~~ehrenberg 1835]]~~	+	[[Category: Bacillus subtilis]]
-	~~[[Category: 6-carboxyhexanoate--CoA ligase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Campopiano~~, D J~~]]	+	[[Category: Campopiano DJ]]
-	[[Category: Moynie, L]]	+	[[Category: Moynie L]]
-	[[Category: Naismith~~, J H~~]]	+	[[Category: Naismith JH]]
-	[[Category: Wang, M]]	+	[[Category: Wang M]]
-	~~[[Category: Ligase~~]]	+

OCA at 07:24, 6 May 2020

OCA — Wed, 06 May 2020 07:24:32 GMT

←Older revision		Revision as of 07:24, 6 May 2020
Line 1:		Line 1:

	==Crystal structure of the 6-carboxyhexanoate-CoA ligase (BioW)from Bacillus subtilis in complex with AMPPNP==		==Crystal structure of the 6-carboxyhexanoate-CoA ligase (BioW)from Bacillus subtilis in complex with AMPPNP==
-	<StructureSection load='5flg' size='340' side='right' caption='[[5flg]], [[Resolution\|resolution]] 2.04Å' scene=''>	+	<StructureSection load='5flg' size='340' side='right'caption='[[5flg]], [[Resolution\|resolution]] 2.04Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5flg]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FLG OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5FLG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5flg]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FLG OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5FLG FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PML:PIMELIC+ACID'>PML</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PML:PIMELIC+ACID'>PML</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5fll\|5fll]], [[5fm0\|5fm0]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5fll\|5fll]], [[5fm0\|5fm0]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/6-carboxyhexanoate--CoA_ligase 6-carboxyhexanoate--CoA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.2.1.14 6.2.1.14] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/6-carboxyhexanoate--CoA_ligase 6-carboxyhexanoate--CoA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.2.1.14 6.2.1.14] </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=5flg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5flg OCA], [http://pdbe.org/5flg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5flg RCSB], [http://www.ebi.ac.uk/pdbsum/5flg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5flg 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=5flg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5flg OCA], [http://pdbe.org/5flg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5flg RCSB], [http://www.ebi.ac.uk/pdbsum/5flg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5flg ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 24:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Vibrio subtilis ehrenberg 1835]]
	[[Category: 6-carboxyhexanoate--CoA ligase]]		[[Category: 6-carboxyhexanoate--CoA ligase]]
		+	[[Category: Large Structures]]
	[[Category: Campopiano, D J]]		[[Category: Campopiano, D J]]
	[[Category: Moynie, L]]		[[Category: Moynie, L]]

OCA at 07:47, 27 April 2017

OCA — Thu, 27 Apr 2017 07:47:40 GMT

←Older revision		Revision as of 07:47, 27 April 2017
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	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/BIOW_BACSU BIOW_BACSU]] Catalyzes the transformation of pimelate into pimeloyl-CoA with concomitant hydrolysis of ATP to AMP.		[[http://www.uniprot.org/uniprot/BIOW_BACSU BIOW_BACSU]] Catalyzes the transformation of pimelate into pimeloyl-CoA with concomitant hydrolysis of ATP to AMP.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Biotin is an essential vitamin in plants and mammals, functioning as the carbon dioxide carrier within central lipid metabolism. Bacterial pimeloyl-CoA synthetase (BioW) acts as a highly specific substrate-selection gate, ensuring the integrity of the carbon chain in biotin synthesis. BioW catalyzes the condensation of pimelic acid (C7 dicarboxylic acid) with CoASH in an ATP-dependent manner to form pimeloyl-CoA, the first dedicated biotin building block. Multiple structures of Bacillus subtilis BioW together capture all three substrates, as well as the intermediate pimeloyl-adenylate and product pyrophosphate (PPi), indicating that the enzyme uses an internal ruler to select the correct dicarboxylic acid substrate. Both the catalytic mechanism and the surprising stability of the adenylate intermediate were rationalized through site-directed mutagenesis. Building on this understanding, BioW was engineered to synthesize high-value heptanoyl (C7) and octanoyl (C8) monocarboxylic acid-CoA and C8 dicarboxylic-CoA products, highlighting the enzyme's synthetic potential.
		+
		+	Using the pimeloyl-CoA synthetase adenylation fold to synthesize fatty acid thioesters.,Wang M, Moynie L, Harrison PJ, Kelly V, Piper A, Naismith JH, Campopiano DJ Nat Chem Biol. 2017 Apr 17. doi: 10.1038/nchembio.2361. PMID:28414710<ref>PMID:28414710</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5flg" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 03:24, 10 December 2016

OCA — Sat, 10 Dec 2016 03:24:29 GMT

←Older revision		Revision as of 03:24, 10 December 2016
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-	'''Unreleased structure'''

-	~~The entry~~ 5flg is ~~ON HOLD until Paper Publication~~	+	==Crystal structure of the 6-carboxyhexanoate-CoA ligase (BioW)from Bacillus subtilis in complex with AMPPNP==
-		+	<StructureSection load='5flg' size='340' side='right' caption='[[5flg]], [[Resolution\|resolution]] 2.04Å' scene=''>
-	~~Authors~~: ~~Moynie~~, L., ~~Wang~~, M., ~~Campopiano~~, D.J., ~~Naismith~~, J.H.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5flg]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FLG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5FLG FirstGlance]. <br>
-	~~Description~~: ~~Crystal structure of~~ the 6-carboxyhexanoate-CoA ligase ~~(BioW)from Bacillus subtilis in complex with AMPPNP~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PML:PIMELIC+ACID'>PML</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5fll\|5fll]], [[5fm0\|5fm0]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/6-carboxyhexanoate--CoA_ligase 6-carboxyhexanoate--CoA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.2.1.14 6.2.1.14] </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=5flg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5flg OCA], [http://pdbe.org/5flg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5flg RCSB], [http://www.ebi.ac.uk/pdbsum/5flg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5flg ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/BIOW_BACSU BIOW_BACSU]] Catalyzes the transformation of pimelate into pimeloyl-CoA with concomitant hydrolysis of ATP to AMP.
		+	__TOC__
		+	</StructureSection>
		+	[[Category: 6-carboxyhexanoate--CoA ligase]]
		+	[[Category: Campopiano, D J]]
		+	[[Category: Moynie, L]]
		+	[[Category: Naismith, J H]]
	[[Category: Wang, M]]		[[Category: Wang, M]]
-	[[Category: ~~Naismith, J.H]]~~	+	[[Category: Ligase]]
-	~~[[Category: Moynie, L]]~~	+
-	~~[[Category: Campopiano, D.J~~]]	+

OCA at 14:38, 10 February 2016

OCA — Wed, 10 Feb 2016 14:38:13 GMT

←Older revision		Revision as of 14:38, 10 February 2016
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5flg is ON HOLD	+	The entry 5flg is ON HOLD until Paper Publication

	Authors: Moynie, L., Wang, M., Campopiano, D.J., Naismith, J.H.		Authors: Moynie, L., Wang, M., Campopiano, D.J., Naismith, J.H.

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

OCA — Tue, 01 Dec 2015 03:32:50 GMT

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

←Older revision

Revision as of 03:32, 1 December 2015

OCA: New page: '''Unreleased structure''' The entry 5flg is ON HOLD Authors: Moynie, L., Wang, M., Campopiano, D.J., Naismith, J.H. Description: Crystal structure of the 6-carboxyhexanoate-CoA ligase...

OCA — Tue, 01 Dec 2015 03:32:49 GMT

New page: '''Unreleased structure''' The entry 5flg is ON HOLD Authors: Moynie, L., Wang, M., Campopiano, D.J., Naismith, J.H. Description: Crystal structure of the 6-carboxyhexanoate-CoA ligase...

New page

'''Unreleased structure'''

The entry 5flg is ON HOLD

Authors: Moynie, L., Wang, M., Campopiano, D.J., Naismith, J.H.

Description: Crystal structure of the 6-carboxyhexanoate-CoA ligase (BioW)from Bacillus subtilis in complex with AMPPNP
[[Category: Unreleased Structures]]
[[Category: Wang, M]]
[[Category: Naismith, J.H]]
[[Category: Moynie, L]]
[[Category: Campopiano, D.J]]