4m7s - Revision history

OCA at 11:01, 21 December 2022

OCA — Wed, 21 Dec 2022 11:01:40 GMT

←Older revision		Revision as of 11:01, 21 December 2022
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	==Crystal structure of SeMet BtrN in an OPEN conformation==		==Crystal structure of SeMet BtrN in an OPEN conformation==
-	<StructureSection load='4m7s' size='340' side='right' caption='[[4m7s]], [[Resolution\|resolution]] 2.02Å' scene=''>	+	<StructureSection load='4m7s' size='340' side='right'caption='[[4m7s]], [[Resolution\|resolution]] 2.02Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4m7s]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_24 Atcc 24~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M7S OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4M7S FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4m7s]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Niallia_circulans Niallia circulans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M7S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4M7S FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=~~SF4~~:~~IRON/SULFUR+CLUSTER~~'>~~SF4~~</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4m7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4m7s OCA], [https://pdbe.org/4m7s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4m7s RCSB], [https://www.ebi.ac.uk/pdbsum/4m7s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4m7s ProSAT]</span></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4m7t\|4m7t]]</td></tr>~~	+
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">btrN ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1397 ATCC 24])~~</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=4m7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4m7s OCA], [~~http~~://pdbe.org/4m7s PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4m7s RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4m7s PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4m7s ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/BTRN_NIACI BTRN_NIACI] Catalyzes the radical S-adenosyl-L-methionine (SAM)-dependent two-electron oxidation of 2-deoxy-scyllo-inosamine (DOIA) to amino-dideoxy-scyllo-inosose (amino-DOI) in the biosynthetic pathway of butirosin.<ref>PMID:18001019</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Atcc 24~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Drennan, C L~~]]	+	[[Category: Niallia circulans]]
-	[[Category: ~~Goldman, P J~~]]	+	[[Category: Drennan CL]]
-	[[Category: ~~Adomet radical fold]]~~	+	[[Category: Goldman PJ]]
-	~~[[Category: Metal binding protein~~]]	+

OCA at 07:25, 5 August 2016

OCA — Fri, 05 Aug 2016 07:25:26 GMT

←Older revision		Revision as of 07:25, 5 August 2016
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-	{{STRUCTURE_4m7s\| PDB=4m7s \| SCENE= }}
-	===Crystal structure of SeMet BtrN in an OPEN conformation===
-	{{ABSTRACT_PUBMED_24048029}}

-	==~~About this Structure~~==	+	==Crystal structure of SeMet BtrN in an OPEN conformation==
-	[[4m7s]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_24 Atcc 24]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M7S OCA].	+	<StructureSection load='4m7s' size='340' side='right' caption='[[4m7s]], [[Resolution\|resolution]] 2.02Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4m7s]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_24 Atcc 24]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M7S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4M7S FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</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='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4m7t\|4m7t]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">btrN ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1397 ATCC 24])</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=4m7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4m7s OCA], [http://pdbe.org/4m7s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4m7s RCSB], [http://www.ebi.ac.uk/pdbsum/4m7s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4m7s ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The 2-deoxy-scyllo-inosamine (DOIA) dehydrogenases are key enzymes in the biosynthesis of 2-deoxystreptamine-containing aminoglycoside antibiotics. In contrast to most DOIA dehydrogenases, which are NAD-dependent, the DOIA dehydrogenase from Bacillus circulans (BtrN) is an S-adenosyl-l-methionine (AdoMet) radical enzyme. To examine how BtrN employs AdoMet radical chemistry, we have determined its structure with AdoMet and substrate to 1.56 A resolution. We find a previously undescribed modification to the core AdoMet radical fold: instead of the canonical (beta/alpha)6 architecture, BtrN displays a (beta5/alpha4) motif. We further find that an auxiliary [4Fe-4S] cluster in BtrN, thought to bind substrate, is instead implicated in substrate-radical oxidation. High structural homology in the auxiliary cluster binding region between BtrN, fellow AdoMet radical dehydrogenase anSME, and molybdenum cofactor biosynthetic enzyme MoaA provides support for the establishment of an AdoMet radical structural motif that is likely common to approximately 6,400 uncharacterized AdoMet radical enzymes.

-	~~==Reference==~~	+	X-ray analysis of butirosin biosynthetic enzyme BtrN redefines structural motifs for AdoMet radical chemistry.,Goldman PJ, Grove TL, Booker SJ, Drennan CL Proc Natl Acad Sci U S A. 2013 Sep 18. PMID:24048029<ref>PMID:24048029</ref>
-	<ref ~~group="xtra"~~>PMID:~~024048029~~</ref><~~references group~~="~~xtra~~"/><references/>	+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 4m7s" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Atcc 24]]		[[Category: Atcc 24]]
-	[[Category: Drennan, C L.]]	+	[[Category: Drennan, C L]]
-	[[Category: Goldman, P J.]]	+	[[Category: Goldman, P J]]
	[[Category: Adomet radical fold]]		[[Category: Adomet radical fold]]
	[[Category: Metal binding protein]]		[[Category: Metal binding protein]]

OCA at 07:59, 5 February 2014

OCA — Wed, 05 Feb 2014 07:59:18 GMT

←Older revision		Revision as of 07:59, 5 February 2014
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	==About this Structure==		==About this Structure==
-	[[4m7s]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Bacillus_circulans Bacillus circulans~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M7S OCA].	+	[[4m7s]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_24 Atcc 24]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M7S OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:024048029</ref><references group="xtra"/><references/>		<ref group="xtra">PMID:024048029</ref><references group="xtra"/><references/>
-	[[Category: ~~Bacillus circulans~~]]	+	[[Category: Atcc 24]]
	[[Category: Drennan, C L.]]		[[Category: Drennan, C L.]]
	[[Category: Goldman, P J.]]		[[Category: Goldman, P J.]]
	[[Category: Adomet radical fold]]		[[Category: Adomet radical fold]]
	[[Category: Metal binding protein]]		[[Category: Metal binding protein]]

OCA at 07:24, 2 October 2013

OCA — Wed, 02 Oct 2013 07:24:52 GMT

←Older revision		Revision as of 07:24, 2 October 2013
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-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_4m7s\| PDB=4m7s \| SCENE= }}
		+	===Crystal structure of SeMet BtrN in an OPEN conformation===
		+	{{ABSTRACT_PUBMED_24048029}}

-	~~The entry~~ 4m7s is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
		+	[[4m7s]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_circulans Bacillus circulans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M7S OCA].

-	~~Authors~~: ~~Goldman, P.J.,~~ Drennan, C.L.	+	==Reference==
-		+	<ref group="xtra">PMID:024048029</ref><references group="xtra"/><references/>
-	~~Description~~: ~~Crystal structure of SeMet BtrN in an OPEN conformation~~	+	[[Category: Bacillus circulans]]
		+	[[Category: Drennan, C L.]]
		+	[[Category: Goldman, P J.]]
		+	[[Category: Adomet radical fold]]
		+	[[Category: Metal binding protein]]

OCA at 03:35, 20 September 2013

OCA — Fri, 20 Sep 2013 03:35:38 GMT

←Older revision		Revision as of 03:35, 20 September 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4m7s is ON HOLD	+	The entry 4m7s is ON HOLD until Paper Publication

	Authors: Goldman, P.J., Drennan, C.L.		Authors: Goldman, P.J., Drennan, C.L.

	Description: Crystal structure of SeMet BtrN in an OPEN conformation		Description: Crystal structure of SeMet BtrN in an OPEN conformation

OCA: Protected "4m7s" [edit=sysop:move=sysop]

OCA — Wed, 21 Aug 2013 07:58:03 GMT

Protected "4m7s" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:58, 21 August 2013

OCA: New page: '''Unreleased structure''' The entry 4m7s is ON HOLD Authors: Goldman, P.J., Drennan, C.L. Description: Crystal structure of SeMet BtrN in an OPEN conformation

OCA — Wed, 21 Aug 2013 07:58:02 GMT

New page: '''Unreleased structure''' The entry 4m7s is ON HOLD Authors: Goldman, P.J., Drennan, C.L. Description: Crystal structure of SeMet BtrN in an OPEN conformation

New page

'''Unreleased structure'''

The entry 4m7s is ON HOLD

Authors: Goldman, P.J., Drennan, C.L.

Description: Crystal structure of SeMet BtrN in an OPEN conformation