4un1 - Revision history

OCA at 10:30, 10 January 2024

OCA — Wed, 10 Jan 2024 10:30:46 GMT

←Older revision		Revision as of 10:30, 10 January 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4un1]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Desulfovibrio_desulfuricans Desulfovibrio desulfuricans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UN1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4UN1 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4un1]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Desulfovibrio_desulfuricans Desulfovibrio desulfuricans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UN1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4UN1 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=OBV:12,18-DIDECARBOXY-SIROHEME'>OBV</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]] 1.97Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=OBV:12,18-DIDECARBOXY-SIROHEME'>OBV</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=4un1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4un1 OCA], [https://pdbe.org/4un1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4un1 RCSB], [https://www.ebi.ac.uk/pdbsum/4un1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4un1 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=4un1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4un1 OCA], [https://pdbe.org/4un1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4un1 RCSB], [https://www.ebi.ac.uk/pdbsum/4un1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4un1 ProSAT]</span></td></tr>
	</table>		</table>

OCA at 08:30, 22 March 2023

OCA — Wed, 22 Mar 2023 08:30:06 GMT

←Older revision		Revision as of 08:30, 22 March 2023
Line 3:		Line 3:
	<StructureSection load='4un1' size='340' side='right'caption='[[4un1]], [[Resolution\|resolution]] 1.97Å' scene=''>		<StructureSection load='4un1' size='340' side='right'caption='[[4un1]], [[Resolution\|resolution]] 1.97Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4un1]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_desulfuricans"_(beijerinck_1895)_saltet_1900 "bacillus~~ desulfuricans~~" (beijerinck 1895) saltet 1900~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UN1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4UN1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4un1]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Desulfovibrio_desulfuricans Desulfovibrio desulfuricans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UN1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4UN1 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=OBV:12,18-DIDECARBOXY-SIROHEME'>OBV</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=OBV:12,18-DIDECARBOXY-SIROHEME'>OBV</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4czd\|4czd]]~~</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=4un1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4un1 OCA], [https://pdbe.org/4un1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4un1 RCSB], [https://www.ebi.ac.uk/pdbsum/4un1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4un1 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=4un1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4un1 OCA], [~~http~~://pdbe.org/4un1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4un1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4un1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4un1 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/AHBA_DESDA AHBA_DESDA] Involved in siroheme-dependent heme b biosynthesis. Catalyzes the decarboxylation of siroheme into didecarboxysiroheme (PubMed:24865947). Siroheme is decarboxylated to monodecarboxysiroheme, which is in turn decarboxylated to didecarboxysiroheme (PubMed:24865947).<ref>PMID:24865947</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Desulfovibrio desulfuricans]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Brown~~, D G~~]]	+	[[Category: Brown DG]]
-	[[Category: Palmer~~, D J~~]]	+	[[Category: Palmer DJ]]
-	[[Category: Pickersgill~~, R W~~]]	+	[[Category: Pickersgill RW]]
-	[[Category: Warren~~, M J]]~~	+	[[Category: Warren MJ]]
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 09:09, 21 May 2019

OCA — Tue, 21 May 2019 09:09:09 GMT

←Older revision		Revision as of 09:09, 21 May 2019
Line 1:		Line 1:

	==Sirohaem decarboxylase AhbA/B - an enzyme with structural homology to the Lrp/AsnC transcription factor family that is part of the alternative haem biosynthesis pathway.==		==Sirohaem decarboxylase AhbA/B - an enzyme with structural homology to the Lrp/AsnC transcription factor family that is part of the alternative haem biosynthesis pathway.==
-	<StructureSection load='4un1' size='340' side='right' caption='[[4un1]], [[Resolution\|resolution]] 1.97Å' scene=''>	+	<StructureSection load='4un1' size='340' side='right'caption='[[4un1]], [[Resolution\|resolution]] 1.97Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4un1]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UN1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UN1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4un1]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_desulfuricans"_(beijerinck_1895)_saltet_1900 "bacillus desulfuricans" (beijerinck 1895) saltet 1900]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UN1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UN1 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=OBV:12,18-DIDECARBOXY-SIROHEME'>OBV</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=OBV:12,18-DIDECARBOXY-SIROHEME'>OBV</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4czd\|4czd]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4czd\|4czd]]</td></tr>
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Brown, D G]]		[[Category: Brown, D G]]
	[[Category: Palmer, D J]]		[[Category: Palmer, D J]]

OCA at 19:13, 11 August 2016

OCA — Thu, 11 Aug 2016 19:13:02 GMT

←Older revision		Revision as of 19:13, 11 August 2016
Line 1:		Line 1:
		+
	==Sirohaem decarboxylase AhbA/B - an enzyme with structural homology to the Lrp/AsnC transcription factor family that is part of the alternative haem biosynthesis pathway.==		==Sirohaem decarboxylase AhbA/B - an enzyme with structural homology to the Lrp/AsnC transcription factor family that is part of the alternative haem biosynthesis pathway.==
	<StructureSection load='4un1' size='340' side='right' caption='[[4un1]], [[Resolution\|resolution]] 1.97Å' scene=''>		<StructureSection load='4un1' size='340' side='right' caption='[[4un1]], [[Resolution\|resolution]] 1.97Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=OBV:12,18-DIDECARBOXY-SIROHEME'>OBV</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=OBV:12,18-DIDECARBOXY-SIROHEME'>OBV</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4czd\|4czd]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4czd\|4czd]]</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=4un1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4un1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4un1 RCSB], [http://www.ebi.ac.uk/pdbsum/4un1 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=4un1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4un1 OCA], [http://pdbe.org/4un1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4un1 RCSB], [http://www.ebi.ac.uk/pdbsum/4un1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4un1 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 15:		Line 16:
	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 4un1" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 12:56, 5 January 2015

OCA — Mon, 05 Jan 2015 12:56:43 GMT

←Older revision		Revision as of 12:56, 5 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4un1]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UN1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UN1 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4un1]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UN1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UN1 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=OBV:12,18-DIDECARBOXY-SIROHEME'>OBV</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=OBV:12,18-DIDECARBOXY-SIROHEME'>OBV</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4czd\|4czd]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4czd\|4czd]]</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4un1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4un1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4un1 RCSB], [http://www.ebi.ac.uk/pdbsum/4un1 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=4un1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4un1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4un1 RCSB], [http://www.ebi.ac.uk/pdbsum/4un1 PDBsum]</span></td></tr>
-	<table>	+	</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 19:		Line 19:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Brown, D G.]]	+	[[Category: Brown, D G]]
-	[[Category: Palmer, D J.]]	+	[[Category: Palmer, D J]]
-	[[Category: Pickersgill, R W.]]	+	[[Category: Pickersgill, R W]]
-	[[Category: Warren, M J.]]	+	[[Category: Warren, M J]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

OCA at 08:47, 11 June 2014

OCA — Wed, 11 Jun 2014 08:47:10 GMT

←Older revision		Revision as of 08:47, 11 June 2014
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Sirohaem decarboxylase AhbA/B - an enzyme with structural homology to the Lrp/AsnC transcription factor family that is part of the alternative haem biosynthesis pathway.==
		+	<StructureSection load='4un1' size='340' side='right' caption='[[4un1]], [[Resolution\|resolution]] 1.97Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4un1]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UN1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UN1 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=OBV:12,18-DIDECARBOXY-SIROHEME'>OBV</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4czd\|4czd]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4un1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4un1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4un1 RCSB], [http://www.ebi.ac.uk/pdbsum/4un1 PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Some bacteria and archaea synthesise haem by an alternative pathway, which involves the sequestration of sirohaem as a metabolic intermediate rather than as a prosthetic group. Along this pathway the two acetic acid side chains attached to C12 and C18 are decarboxylated by sirohaem decarboxylase, a heterodimeric enzyme composed of AhbA and AhbB, to give didecarboxysirohaem. Further modifications catalysed by two related radical SAM enzymes, AhbC and AhbD, transform didecarboxysirohaem into Fe-coproporphyrin III and haem, respectively. The detailed characterisation of sirohaem decarboxylase is reported in molecular detail. Recombinant versions of Desulfovibrio desulfuricans, Desulfovibrio vulgaris and Methanosarcina barkeri AhbA/B have been produced and their physical properties compared. The D. vulgaris and M. barkeri enzyme complexes both copurify with haem, whose redox state influences the activity of the latter. The kinetic parameters of the D. desulfuricans enzyme have been determined, the enzyme crystallised and it structure has been elucidated. The topology of the enzyme reveals that it shares a structural similitude to the AsnC/Lrp family of transcription factors. The active site is formed in the cavity between the two subunits and a AhbA/B-product complex with didecarboxysirohaem has been obtained. A mechanism for the decarboxylation of the kinetically stable carboxyl groups is proposed.

-	The ~~entry 4un1~~ is ~~ON HOLD~~	+	The structure, function and properties of sirohaem decarboxylase - an enzyme with structural homology to a transcription factor family that is part of the alternative haem biosynthesis pathway.,Palmer DJ, Schroeder S, Lawrence AD, Deery E, Lobo SA, Saraiva LM, McLean KJ, Munro AW, Ferguson SJ, Pickersgill RW, Brown DG, Warren MJ Mol Microbiol. 2014 May 28. doi: 10.1111/mmi.12656. PMID:24865947<ref>PMID:24865947</ref>

-	~~Authors: Palmer~~, D.J., Brown, D.G., ~~Warren, M.~~J., Pickersgill, R.W.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~The structure~~, ~~function and properties of siroheme decarboxylase ( AhbAB) -an enzyme with structural homology to AsnC-Lrp transcriptional regulators, that is part of the alternative heme biosynthesis pathway~~.	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Brown, D G.]]
		+	[[Category: Palmer, D J.]]
		+	[[Category: Pickersgill, R W.]]
		+	[[Category: Warren, M J.]]
		+	[[Category: Oxidoreductase]]

OCA: Protected "4un1" [edit=sysop:move=sysop]

OCA — Wed, 04 Jun 2014 05:00:30 GMT

Protected "4un1" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:00, 4 June 2014

OCA: New page: '''Unreleased structure''' The entry 4un1 is ON HOLD Authors: Palmer, D.J., Brown, D.G., Warren, M.J., Pickersgill, R.W. Description: The structure, function and properties of siroheme...

OCA — Wed, 04 Jun 2014 05:00:30 GMT

New page: '''Unreleased structure''' The entry 4un1 is ON HOLD Authors: Palmer, D.J., Brown, D.G., Warren, M.J., Pickersgill, R.W. Description: The structure, function and properties of siroheme...

New page

'''Unreleased structure'''

The entry 4un1 is ON HOLD

Authors: Palmer, D.J., Brown, D.G., Warren, M.J., Pickersgill, R.W.

Description: The structure, function and properties of siroheme decarboxylase ( AhbAB) -an enzyme with structural homology to AsnC-Lrp transcriptional regulators, that is part of the alternative heme biosynthesis pathway.