4czd - Revision history

OCA at 11:16, 9 May 2024

2024-05-09T11:16:19Z

←Older revision		Revision as of 11:16, 9 May 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4czd]] 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=4CZD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4CZD FirstGlance]. <br>		<table><tr><td colspan='2'>[[4czd]] 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=4CZD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4CZD FirstGlance]. <br>
-	</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=4czd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4czd OCA], [https://pdbe.org/4czd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4czd RCSB], [https://www.ebi.ac.uk/pdbsum/4czd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4czd ProSAT]</span></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]] 2.23Å</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=4czd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4czd OCA], [https://pdbe.org/4czd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4czd RCSB], [https://www.ebi.ac.uk/pdbsum/4czd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4czd ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== 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>	+	[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 ==

OCA at 07:39, 14 September 2022

2022-09-14T07:39:50Z

←Older revision		Revision as of 07:39, 14 September 2022
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	<StructureSection load='4czd' size='340' side='right'caption='[[4czd]], [[Resolution\|resolution]] 2.23Å' scene=''>		<StructureSection load='4czd' size='340' side='right'caption='[[4czd]], [[Resolution\|resolution]] 2.23Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4czd]] 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=4CZD OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4CZD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4czd]] 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=4CZD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4CZD FirstGlance]. <br>
-	</td></tr>~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4un1\|4un1]]</td></tr>~~	+	</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=4czd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4czd OCA], [https://pdbe.org/4czd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4czd RCSB], [https://www.ebi.ac.uk/pdbsum/4czd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4czd 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=4czd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4czd OCA], [~~http~~://pdbe.org/4czd PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4czd RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4czd PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4czd 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 ==
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	__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: Warren~~, M J]]~~	+	[[Category: Warren MJ]]
-	~~[[Category: Lyase~~]]	+

OCA at 08:53, 20 March 2019

2019-03-20T08:53:06Z

←Older revision		Revision as of 08:53, 20 March 2019
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	==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='4czd' size='340' side='right' caption='[[4czd]], [[Resolution\|resolution]] 2.23Å' scene=''>	+	<StructureSection load='4czd' size='340' side='right'caption='[[4czd]], [[Resolution\|resolution]] 2.23Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4czd]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CZD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CZD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4czd]] 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=4CZD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CZD FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4un1\|4un1]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4un1\|4un1]]</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=4czd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4czd OCA], [http://pdbe.org/4czd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4czd RCSB], [http://www.ebi.ac.uk/pdbsum/4czd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4czd 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=4czd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4czd OCA], [http://pdbe.org/4czd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4czd RCSB], [http://www.ebi.ac.uk/pdbsum/4czd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4czd ProSAT]</span></td></tr>
Line 20:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Brown, D G]]		[[Category: Brown, D G]]
	[[Category: Palmer, D J]]		[[Category: Palmer, D J]]
	[[Category: Warren, M J]]		[[Category: Warren, M J]]
	[[Category: Lyase]]		[[Category: Lyase]]

OCA at 20:35, 11 August 2016

2016-08-11T20:35:29Z

←Older revision		Revision as of 20:35, 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='4czd' size='340' side='right' caption='[[4czd]], [[Resolution\|resolution]] 2.23Å' scene=''>		<StructureSection load='4czd' size='340' side='right' caption='[[4czd]], [[Resolution\|resolution]] 2.23Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[4czd]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CZD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CZD FirstGlance]. <br>		<table><tr><td colspan='2'>[[4czd]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CZD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CZD FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4un1\|4un1]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4un1\|4un1]]</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=4czd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4czd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4czd RCSB], [http://www.ebi.ac.uk/pdbsum/4czd 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=4czd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4czd OCA], [http://pdbe.org/4czd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4czd RCSB], [http://www.ebi.ac.uk/pdbsum/4czd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4czd ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 4czd" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 12:29, 5 January 2015

2015-01-05T12:29:33Z

←Older revision		Revision as of 12:29, 5 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4czd]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CZD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CZD FirstGlance]. <br>		<table><tr><td colspan='2'>[[4czd]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CZD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CZD FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4un1\|4un1]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4un1\|4un1]]</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=4czd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4czd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4czd RCSB], [http://www.ebi.ac.uk/pdbsum/4czd 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=4czd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4czd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4czd RCSB], [http://www.ebi.ac.uk/pdbsum/4czd 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 18:		Line 18:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Brown, D G.]]	+	[[Category: Brown, D G]]
-	[[Category: Palmer, D J.]]	+	[[Category: Palmer, D J]]
-	[[Category: Warren, M J.]]	+	[[Category: Warren, M J]]
	[[Category: Lyase]]		[[Category: Lyase]]

OCA at 08:47, 11 June 2014

2014-06-11T08:47:22Z

←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='4czd' size='340' side='right' caption='[[4czd]], [[Resolution\|resolution]] 2.23Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4czd]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CZD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CZD FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4un1\|4un1]]</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=4czd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4czd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4czd RCSB], [http://www.ebi.ac.uk/pdbsum/4czd 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 4czd~~ 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.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~Siroheme Decarboxylase AhbAB -a heterodimeric decarboxylase from an alternative heme biosynthesis pathway of Desulfovibrio desulfuricans~~	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Brown, D G.]]
		+	[[Category: Palmer, D J.]]
		+	[[Category: Warren, M J.]]
		+	[[Category: Lyase]]

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

2014-04-23T07:06:58Z

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

←Older revision

Revision as of 07:06, 23 April 2014

OCA: New page: '''Unreleased structure''' The entry 4czd is ON HOLD Authors: Palmer, D.J., Brown, D.G. Description: Siroheme Decarboxylase AhbAB -a heterodimeric decarboxylase from an alternative hem...

2014-04-23T07:06:57Z

New page: '''Unreleased structure''' The entry 4czd is ON HOLD Authors: Palmer, D.J., Brown, D.G. Description: Siroheme Decarboxylase AhbAB -a heterodimeric decarboxylase from an alternative hem...

New page

'''Unreleased structure'''

The entry 4czd is ON HOLD

Authors: Palmer, D.J., Brown, D.G.

Description: Siroheme Decarboxylase AhbAB -a heterodimeric decarboxylase from an alternative heme biosynthesis pathway of Desulfovibrio desulfuricans