3t7v - Revision history

OCA at 10:04, 1 March 2024

2024-03-01T10:04:52Z

←Older revision		Revision as of 10:04, 1 March 2024
Line 3:		Line 3:
	<StructureSection load='3t7v' size='340' side='right'caption='[[3t7v]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='3t7v' size='340' side='right'caption='[[3t7v]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3t7v]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Metbf Metbf~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T7V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3T7V FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3t7v]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanosarcina_barkeri_str._Fusaro Methanosarcina barkeri str. Fusaro]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T7V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3T7V FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=MD0:5~~-~~AMINO-D-ISOLEUCINE'>MD0</scene>~~, ~~<scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</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]] 1.5Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;~~'>~~[[1r30\|1r30]], [[3ciw\|3ciw]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MD0:5-AMINO-D-ISOLEUCINE'>MD0</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td><~~td class="sblockDat">Mbar_A0838 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=269797 METBF])</td></tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:</~~b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/Biotin_synthase Biotin synthase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.8.1.6 2.8.1.6]~~ </~~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=3t7v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3t7v OCA], [https://pdbe.org/3t7v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3t7v RCSB], [https://www.ebi.ac.uk/pdbsum/3t7v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3t7v 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=3t7v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3t7v OCA], [https://pdbe.org/3t7v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3t7v RCSB], [https://www.ebi.ac.uk/pdbsum/3t7v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3t7v ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/PYLB_METBF PYLB_METBF]] Catalyzes the isomerization of L-lysine to (2R,3R)-3-methylornithine via a radical-based mechanism, a step in the biosynthesis pathway of pyrrolysine.<ref>PMID:21455182</ref> <ref>PMID:22095926</ref>	+	[https://www.uniprot.org/uniprot/PYLB_METBF PYLB_METBF] Catalyzes the isomerization of L-lysine to (2R,3R)-3-methylornithine via a radical-based mechanism, a step in the biosynthesis pathway of pyrrolysine.<ref>PMID:21455182</ref> <ref>PMID:22095926</ref>
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	Made by the barrel load: The biosynthetic pathway of the recently discovered 22nd amino acid, pyrrolysine, starts with an isomerization of lysine to methylornithine, catalyzed by PylB. The X-ray crystal structure of PylB is determined and shows it has a TIM barrel fold. The sealed central cavity contains a [4Fe-4S] cluster, S-adenosylmethionine (SAM), and methylornithine, whose 2R,3R configuration could be confirmed. The data suggest a fragmentation-recombination mechanism via a glycyl radical intermediate.	+
-		+
-	Crystal Structure of Methylornithine Synthase (PylB): Insights into the Pyrrolysine Biosynthesis.,Quitterer F, List A, Eisenreich W, Bacher A, Groll M Angew Chem Int Ed Engl. 2011 Nov 16. doi: 10.1002/anie.201106765. PMID:22095926<ref>PMID:22095926</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 3t7v" style="background-color:#fffaf0;"></div~~>	+
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Biotin synthase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Metbf~~]]	+	[[Category: Methanosarcina barkeri str. Fusaro]]
-	[[Category: Bacher, A]]	+	[[Category: Bacher A]]
-	[[Category: Eisenreich, W]]	+	[[Category: Eisenreich W]]
-	[[Category: Groll, M]]	+	[[Category: Groll M]]
-	[[Category: List, A]]	+	[[Category: List A]]
-	[[Category: Quitterer, F]]	+	[[Category: Quitterer F]]
-	~~[[Category: 3-methylornithine]]~~	+
-	~~[[Category: Lysine]]~~	+
-	~~[[Category: Mutase]]~~	+
-	~~[[Category: Sam]]~~	+
-	~~[[Category: Tim-barrel fold]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 16:46, 6 July 2022

2022-07-06T16:46:49Z

←Older revision		Revision as of 16:46, 6 July 2022
Line 1:		Line 1:

	==Crystal structure of methylornithine synthase (PylB)==		==Crystal structure of methylornithine synthase (PylB)==
-	<StructureSection load='3t7v' size='340' side='right' caption='[[3t7v]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='3t7v' size='340' side='right'caption='[[3t7v]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3t7v]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Metbf Metbf]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T7V OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3T7V FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3t7v]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Metbf Metbf]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T7V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3T7V FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MD0:5-AMINO-D-ISOLEUCINE'>MD0</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</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=MD0:5-AMINO-D-ISOLEUCINE'>MD0</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1r30\|1r30]], [[3ciw\|3ciw]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1r30\|1r30]], [[3ciw\|3ciw]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mbar_A0838 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=269797 METBF])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mbar_A0838 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=269797 METBF])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Biotin_synthase Biotin synthase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.8.1.6 2.8.1.6] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Biotin_synthase Biotin synthase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.8.1.6 2.8.1.6] </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=3t7v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3t7v OCA], [~~http~~://pdbe.org/3t7v PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3t7v RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3t7v PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3t7v 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=3t7v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3t7v OCA], [https://pdbe.org/3t7v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3t7v RCSB], [https://www.ebi.ac.uk/pdbsum/3t7v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3t7v ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/PYLB_METBF PYLB_METBF]] Catalyzes the isomerization of L-lysine to (2R,3R)-3-methylornithine via a radical-based mechanism, a step in the biosynthesis pathway of pyrrolysine.<ref>PMID:21455182</ref> <ref>PMID:22095926</ref>	+	[[https://www.uniprot.org/uniprot/PYLB_METBF PYLB_METBF]] Catalyzes the isomerization of L-lysine to (2R,3R)-3-methylornithine via a radical-based mechanism, a step in the biosynthesis pathway of pyrrolysine.<ref>PMID:21455182</ref> <ref>PMID:22095926</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 26:		Line 26:
	</StructureSection>		</StructureSection>
	[[Category: Biotin synthase]]		[[Category: Biotin synthase]]
		+	[[Category: Large Structures]]
	[[Category: Metbf]]		[[Category: Metbf]]
	[[Category: Bacher, A]]		[[Category: Bacher, A]]

OCA at 21:00, 4 August 2016

2016-08-04T21:00:14Z

←Older revision		Revision as of 21:00, 4 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of methylornithine synthase (PylB)==		==Crystal structure of methylornithine synthase (PylB)==
	<StructureSection load='3t7v' size='340' side='right' caption='[[3t7v]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='3t7v' size='340' side='right' caption='[[3t7v]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3t7v]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Methanosarcina_barkeri Methanosarcina barkeri~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T7V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3T7V FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3t7v]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Metbf Metbf]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T7V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3T7V FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MD0:5-AMINO-D-ISOLEUCINE'>MD0</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</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"><scene name='pdbligand=MD0:5-AMINO-D-ISOLEUCINE'>MD0</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1r30\|1r30]], [[3ciw\|3ciw]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1r30\|1r30]], [[3ciw\|3ciw]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mbar_A0838 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~2208 Methanosarcina barkeri~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mbar_A0838 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=269797 METBF])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Biotin_synthase Biotin synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.8.1.6 2.8.1.6] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Biotin_synthase Biotin synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.8.1.6 2.8.1.6] </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=3t7v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3t7v OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3t7v RCSB], [http://www.ebi.ac.uk/pdbsum/3t7v 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=3t7v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3t7v OCA], [http://pdbe.org/3t7v PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3t7v RCSB], [http://www.ebi.ac.uk/pdbsum/3t7v PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3t7v ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/~~Q46E78_METBF Q46E78_METBF~~]] Catalyzes the isomerization of L-lysine to (2R,3R)-3-methylornithine via a radical-based mechanism, a step in the biosynthesis pathway of pyrrolysine.<ref>PMID:21455182</ref> <ref>PMID:22095926</ref>	+	[[http://www.uniprot.org/uniprot/PYLB_METBF PYLB_METBF]] Catalyzes the isomerization of L-lysine to (2R,3R)-3-methylornithine via a radical-based mechanism, a step in the biosynthesis pathway of pyrrolysine.<ref>PMID:21455182</ref> <ref>PMID:22095926</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 19:		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 3t7v" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
Line 24:		Line 26:
	</StructureSection>		</StructureSection>
	[[Category: Biotin synthase]]		[[Category: Biotin synthase]]
-	[[Category: ~~Methanosarcina barkeri~~]]	+	[[Category: Metbf]]
	[[Category: Bacher, A]]		[[Category: Bacher, A]]
	[[Category: Eisenreich, W]]		[[Category: Eisenreich, W]]

OCA at 19:36, 24 December 2014

2014-12-24T19:36:55Z

←Older revision		Revision as of 19:36, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3t7v]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanosarcina_barkeri Methanosarcina barkeri]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T7V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3T7V FirstGlance]. <br>		<table><tr><td colspan='2'>[[3t7v]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanosarcina_barkeri Methanosarcina barkeri]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T7V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3T7V FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MD0:5-AMINO-D-ISOLEUCINE'>MD0</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MD0:5-AMINO-D-ISOLEUCINE'>MD0</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1r30\|1r30]], [[3ciw\|3ciw]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1r30\|1r30]], [[3ciw\|3ciw]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mbar_A0838 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2208 Methanosarcina barkeri])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mbar_A0838 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2208 Methanosarcina barkeri])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Biotin_synthase Biotin synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.8.1.6 2.8.1.6] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Biotin_synthase Biotin synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.8.1.6 2.8.1.6] </span></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=3t7v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3t7v OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3t7v RCSB], [http://www.ebi.ac.uk/pdbsum/3t7v 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=3t7v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3t7v OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3t7v RCSB], [http://www.ebi.ac.uk/pdbsum/3t7v PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/Q46E78_METBF Q46E78_METBF]] Catalyzes the isomerization of L-lysine to (2R,3R)-3-methylornithine via a radical-based mechanism, a step in the biosynthesis pathway of pyrrolysine.<ref>PMID:21455182</ref> <ref>PMID:22095926</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 15:		Line 17:
	Crystal Structure of Methylornithine Synthase (PylB): Insights into the Pyrrolysine Biosynthesis.,Quitterer F, List A, Eisenreich W, Bacher A, Groll M Angew Chem Int Ed Engl. 2011 Nov 16. doi: 10.1002/anie.201106765. PMID:22095926<ref>PMID:22095926</ref>		Crystal Structure of Methylornithine Synthase (PylB): Insights into the Pyrrolysine Biosynthesis.,Quitterer F, List A, Eisenreich W, Bacher A, Groll M Angew Chem Int Ed Engl. 2011 Nov 16. doi: 10.1002/anie.201106765. PMID:22095926<ref>PMID:22095926</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, 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>
	== References ==		== References ==
Line 23:		Line 25:
	[[Category: Biotin synthase]]		[[Category: Biotin synthase]]
	[[Category: Methanosarcina barkeri]]		[[Category: Methanosarcina barkeri]]
-	[[Category: Bacher, A.]]	+	[[Category: Bacher, A]]
-	[[Category: Eisenreich, W.]]	+	[[Category: Eisenreich, W]]
-	[[Category: Groll, M.]]	+	[[Category: Groll, M]]
-	[[Category: List, A.]]	+	[[Category: List, A]]
-	[[Category: Quitterer, F.]]	+	[[Category: Quitterer, F]]
	[[Category: 3-methylornithine]]		[[Category: 3-methylornithine]]
	[[Category: Lysine]]		[[Category: Lysine]]

OCA at 06:41, 5 June 2014

2014-06-05T06:41:29Z

←Older revision		Revision as of 06:41, 5 June 2014
Line 1:		Line 1:
-	[[~~Image:~~3t7v.~~png~~\|~~left~~\|~~200px~~]]	+	==Crystal structure of methylornithine synthase (PylB)==
		+	<StructureSection load='3t7v' size='340' side='right' caption='[[3t7v]], [[Resolution\|resolution]] 1.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3t7v]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanosarcina_barkeri Methanosarcina barkeri]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T7V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3T7V FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MD0:5-AMINO-D-ISOLEUCINE'>MD0</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1r30\|1r30]], [[3ciw\|3ciw]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mbar_A0838 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2208 Methanosarcina barkeri])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Biotin_synthase Biotin synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.8.1.6 2.8.1.6] </span></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=3t7v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3t7v OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3t7v RCSB], [http://www.ebi.ac.uk/pdbsum/3t7v PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Made by the barrel load: The biosynthetic pathway of the recently discovered 22nd amino acid, pyrrolysine, starts with an isomerization of lysine to methylornithine, catalyzed by PylB. The X-ray crystal structure of PylB is determined and shows it has a TIM barrel fold. The sealed central cavity contains a [4Fe-4S] cluster, S-adenosylmethionine (SAM), and methylornithine, whose 2R,3R configuration could be confirmed. The data suggest a fragmentation-recombination mechanism via a glycyl radical intermediate.

-	~~<!--~~	+	Crystal Structure of Methylornithine Synthase (PylB): Insights into the Pyrrolysine Biosynthesis.,Quitterer F, List A, Eisenreich W, Bacher A, Groll M Angew Chem Int Ed Engl. 2011 Nov 16. doi: 10.1002/anie.201106765. PMID:22095926<ref>PMID:22095926</ref>
-	~~The line below this paragraph, containing "STRUCTURE_3t7v", creates the "~~Structure ~~Box" on the page.~~	+
-	~~You may change the PDB parameter~~ (~~which sets the PDB file loaded~~ into the ~~applet)~~	+
-	~~or the SCENE parameter (which sets the initial scene displayed when the page is loaded)~~,	+
-	~~or leave the SCENE parameter empty for the default display~~.	+
-	-->	+
-	~~{{STRUCTURE_3t7v\| PDB=3t7v \| SCENE= }}~~	+

-	~~===Crystal structure~~ of ~~methylornithine synthase (PylB)===~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	~~<!--~~	+	<references/>
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_22095926}}, adds~~ the ~~Publication Abstract to the page~~	+	__TOC__
-	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 22095926 is the PubMed ID number~~.	+	</StructureSection>
-	-->	+
-	~~{{ABSTRACT_PUBMED_22095926}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3t7v]] is a 1 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Methanosarcina_barkeri Methanosarcina barkeri]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T7V OCA].~~	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:022095926<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Biotin synthase]]		[[Category: Biotin synthase]]
	[[Category: Methanosarcina barkeri]]		[[Category: Methanosarcina barkeri]]

OCA at 08:10, 7 December 2011

2011-12-07T08:10:26Z

←Older revision		Revision as of 08:10, 7 December 2011
Line 1:		Line 1:
-	[[Image:3t7v.~~jpg~~\|left\|200px]]	+	[[Image:3t7v.png\|left\|200px]]

	<!--		<!--

OCA at 06:18, 30 November 2011

2011-11-30T06:18:29Z

←Older revision		Revision as of 06:18, 30 November 2011
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3t7v.jpg\|left\|200px]]

-	The ~~entry 3t7v~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3t7v", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_3t7v\| PDB=3t7v \| SCENE= }}

-	~~Authors: Quitterer, F., List, A., Eisenreich, W., Bacher, A., Groll, M.~~	+	===Crystal structure of methylornithine synthase (PylB)===

-	~~Description~~: ~~Crystal~~ structure ~~of methylornithine~~ synthase ~~(PylB)~~	+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_22095926}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 22095926 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_22095926}}
		+
		+	==About this Structure==
		+	[[3t7v]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanosarcina_barkeri Methanosarcina barkeri]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T7V OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:022095926</ref><references group="xtra"/>
		+	[[Category: Biotin synthase]]
		+	[[Category: Methanosarcina barkeri]]
		+	[[Category: Bacher, A.]]
		+	[[Category: Eisenreich, W.]]
		+	[[Category: Groll, M.]]
		+	[[Category: List, A.]]
		+	[[Category: Quitterer, F.]]
		+	[[Category: 3-methylornithine]]
		+	[[Category: Lysine]]
		+	[[Category: Mutase]]
		+	[[Category: Sam]]
		+	[[Category: Tim-barrel fold]]
		+	[[Category: Transferase]]

OCA at 08:38, 30 October 2011

2011-10-30T08:38:43Z

←Older revision		Revision as of 08:38, 30 October 2011
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3t7v is ON HOLD	+	The entry 3t7v is ON HOLD until Paper Publication

	Authors: Quitterer, F., List, A., Eisenreich, W., Bacher, A., Groll, M.		Authors: Quitterer, F., List, A., Eisenreich, W., Bacher, A., Groll, M.

-	Description: Crystal structure of ~~lysine mutase~~	+	Description: Crystal structure of methylornithine synthase (PylB)

OCA: Protected "3t7v" [edit=sysop:move=sysop]

2011-08-10T05:36:28Z

Protected "3t7v" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:36, 10 August 2011

OCA: New page: '''Unreleased structure''' The entry 3t7v is ON HOLD Authors: Quitterer, F., List, A., Eisenreich, W., Bacher, A., Groll, M. Description: Crystal structure of lysine mutase

2011-08-10T05:36:26Z

New page: '''Unreleased structure''' The entry 3t7v is ON HOLD Authors: Quitterer, F., List, A., Eisenreich, W., Bacher, A., Groll, M. Description: Crystal structure of lysine mutase

New page

'''Unreleased structure'''

The entry 3t7v is ON HOLD

Authors: Quitterer, F., List, A., Eisenreich, W., Bacher, A., Groll, M.

Description: Crystal structure of lysine mutase