4csw - Revision history

OCA at 12:16, 20 December 2023

2023-12-20T12:16:00Z

←Older revision		Revision as of 12:16, 20 December 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4csw]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Rhodothermus_marinus_DSM_4252 Rhodothermus marinus DSM 4252]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4CSW FirstGlance]. <br>		<table><tr><td colspan='2'>[[4csw]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Rhodothermus_marinus_DSM_4252 Rhodothermus marinus DSM 4252]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4CSW FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UN9:N-[(1-CHLORO-4-HYDROXYISOQUINOLIN-3-YL)CARBONYL]GLYCINE'>UN9</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]] 2.821Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UN9:N-[(1-CHLORO-4-HYDROXYISOQUINOLIN-3-YL)CARBONYL]GLYCINE'>UN9</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=4csw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4csw OCA], [https://pdbe.org/4csw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4csw RCSB], [https://www.ebi.ac.uk/pdbsum/4csw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4csw 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=4csw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4csw OCA], [https://pdbe.org/4csw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4csw RCSB], [https://www.ebi.ac.uk/pdbsum/4csw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4csw ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/D0MK34_RHOM4 D0MK34_RHOM4]]	+	[https://www.uniprot.org/uniprot/D0MK34_RHOM4 D0MK34_RHOM4]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 07:31, 14 September 2022

2022-09-14T07:31:44Z

←Older revision		Revision as of 07:31, 14 September 2022
Line 3:		Line 3:
	<StructureSection load='4csw' size='340' side='right'caption='[[4csw]], [[Resolution\|resolution]] 2.82Å' scene=''>		<StructureSection load='4csw' size='340' side='right'caption='[[4csw]], [[Resolution\|resolution]] 2.82Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4csw]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Rhom4 Rhom4~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSW OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4CSW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4csw]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Rhodothermus_marinus_DSM_4252 Rhodothermus marinus DSM 4252]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4CSW FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UN9:N-[(1-CHLORO-4-HYDROXYISOQUINOLIN-3-YL)CARBONYL]GLYCINE'>UN9</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UN9:N-[(1-CHLORO-4-HYDROXYISOQUINOLIN-3-YL)CARBONYL]GLYCINE'>UN9</scene></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=4csw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4csw OCA], [~~http~~://pdbe.org/4csw PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4csw RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4csw PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4csw 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=4csw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4csw OCA], [https://pdbe.org/4csw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4csw RCSB], [https://www.ebi.ac.uk/pdbsum/4csw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4csw ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[https://www.uniprot.org/uniprot/D0MK34_RHOM4 D0MK34_RHOM4]]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 23:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Rhom4~~]]	+	[[Category: Rhodothermus marinus DSM 4252]]
-	[[Category: McDonough~~, M A~~]]	+	[[Category: McDonough MA]]
-	[[Category: Schofield~~, C J~~]]	+	[[Category: Schofield CJ]]
-	[[Category: Sekirnik, R]]	+	[[Category: Sekirnik R]]
-	~~[[Category: 2-oxoglutarate and iron dependent oxygenase]]~~	+
-	~~[[Category: Double stranded beta helix fold]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 09:40, 5 February 2020

2020-02-05T09:40:07Z

←Older revision		Revision as of 09:40, 5 February 2020
Line 1:		Line 1:

	==Rhodothermus marinus YCFD-like ribosomal protein L16 Arginyl hydroxylase==		==Rhodothermus marinus YCFD-like ribosomal protein L16 Arginyl hydroxylase==
-	<StructureSection load='4csw' size='340' side='right' caption='[[4csw]], [[Resolution\|resolution]] 2.82Å' scene=''>	+	<StructureSection load='4csw' size='340' side='right'caption='[[4csw]], [[Resolution\|resolution]] 2.82Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4csw]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhom4 Rhom4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CSW FirstGlance]. <br>		<table><tr><td colspan='2'>[[4csw]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhom4 Rhom4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CSW FirstGlance]. <br>
Line 20:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Rhom4]]		[[Category: Rhom4]]
	[[Category: McDonough, M A]]		[[Category: McDonough, M A]]

OCA at 19:03, 11 August 2016

2016-08-11T19:03:29Z

←Older revision		Revision as of 19:03, 11 August 2016
Line 1:		Line 1:
		+
	==Rhodothermus marinus YCFD-like ribosomal protein L16 Arginyl hydroxylase==		==Rhodothermus marinus YCFD-like ribosomal protein L16 Arginyl hydroxylase==
	<StructureSection load='4csw' size='340' side='right' caption='[[4csw]], [[Resolution\|resolution]] 2.82Å' scene=''>		<StructureSection load='4csw' size='340' side='right' caption='[[4csw]], [[Resolution\|resolution]] 2.82Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[4csw]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhom4 Rhom4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CSW FirstGlance]. <br>		<table><tr><td colspan='2'>[[4csw]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhom4 Rhom4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CSW FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UN9:N-[(1-CHLORO-4-HYDROXYISOQUINOLIN-3-YL)CARBONYL]GLYCINE'>UN9</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UN9:N-[(1-CHLORO-4-HYDROXYISOQUINOLIN-3-YL)CARBONYL]GLYCINE'>UN9</scene></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=4csw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4csw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4csw RCSB], [http://www.ebi.ac.uk/pdbsum/4csw 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=4csw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4csw OCA], [http://pdbe.org/4csw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4csw RCSB], [http://www.ebi.ac.uk/pdbsum/4csw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4csw ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 14:		Line 15:
	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 4csw" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 14:03, 4 January 2015

2015-01-04T14:03:10Z

←Older revision		Revision as of 14:03, 4 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4csw]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhom4 Rhom4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CSW FirstGlance]. <br>		<table><tr><td colspan='2'>[[4csw]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhom4 Rhom4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CSW FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UN9:N-[(1-CHLORO-4-HYDROXYISOQUINOLIN-3-YL)CARBONYL]GLYCINE'>UN9</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UN9:N-[(1-CHLORO-4-HYDROXYISOQUINOLIN-3-YL)CARBONYL]GLYCINE'>UN9</scene></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=4csw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4csw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4csw RCSB], [http://www.ebi.ac.uk/pdbsum/4csw 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=4csw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4csw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4csw RCSB], [http://www.ebi.ac.uk/pdbsum/4csw 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:
	</StructureSection>		</StructureSection>
	[[Category: Rhom4]]		[[Category: Rhom4]]
-	[[Category: McDonough, M A.]]	+	[[Category: McDonough, M A]]
-	[[Category: Schofield, C J.]]	+	[[Category: Schofield, C J]]
-	[[Category: Sekirnik, R.]]	+	[[Category: Sekirnik, R]]
	[[Category: 2-oxoglutarate and iron dependent oxygenase]]		[[Category: 2-oxoglutarate and iron dependent oxygenase]]
	[[Category: Double stranded beta helix fold]]		[[Category: Double stranded beta helix fold]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

OCA at 05:26, 25 June 2014

2014-06-25T05:26:54Z

←Older revision		Revision as of 05:26, 25 June 2014
Line 12:		Line 12:
	Ribosomal oxygenases are structurally conserved from prokaryotes to humans.,Chowdhury R, Sekirnik R, Brissett NC, Krojer T, Ho CH, Ng SS, Clifton IJ, Ge W, Kershaw NJ, Fox GC, Muniz JR, Vollmar M, Phillips C, Pilka ES, Kavanagh KL, von Delft F, Oppermann U, McDonough MA, Doherty AJ, Schofield CJ Nature. 2014 May 11. doi: 10.1038/nature13263. PMID:24814345<ref>PMID:24814345</ref>		Ribosomal oxygenases are structurally conserved from prokaryotes to humans.,Chowdhury R, Sekirnik R, Brissett NC, Krojer T, Ho CH, Ng SS, Clifton IJ, Ge W, Kershaw NJ, Fox GC, Muniz JR, Vollmar M, Phillips C, Pilka ES, Kavanagh KL, von Delft F, Oppermann U, McDonough MA, Doherty AJ, Schofield CJ Nature. 2014 May 11. doi: 10.1038/nature13263. PMID:24814345<ref>PMID:24814345</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 ==

OCA at 07:06, 21 May 2014

2014-05-21T07:06:58Z

←Older revision		Revision as of 07:06, 21 May 2014
Line 2:		Line 2:
	<StructureSection load='4csw' size='340' side='right' caption='[[4csw]], [[Resolution\|resolution]] 2.82Å' scene=''>		<StructureSection load='4csw' size='340' side='right' caption='[[4csw]], [[Resolution\|resolution]] 2.82Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4csw]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhom4 Rhom4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSW OCA]. <br>	+	<table><tr><td colspan='2'>[[4csw]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhom4 Rhom4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CSW FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UN9:N-[(1-CHLORO-4-HYDROXYISOQUINOLIN-3-YL)CARBONYL]GLYCINE'>UN9</scene><br>		</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UN9:N-[(1-CHLORO-4-HYDROXYISOQUINOLIN-3-YL)CARBONYL]GLYCINE'>UN9</scene><br>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </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=4csw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4csw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4csw RCSB], [http://www.ebi.ac.uk/pdbsum/4csw PDBsum]</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=4csw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4csw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4csw RCSB], [http://www.ebi.ac.uk/pdbsum/4csw PDBsum]</span></td></tr>
	<table>		<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	2-Oxoglutarate (2OG)-dependent oxygenases have important roles in the regulation of gene expression via demethylation of N-methylated chromatin components and in the hydroxylation of transcription factors and splicing factor proteins. Recently, 2OG-dependent oxygenases that catalyse hydroxylation of transfer RNA and ribosomal proteins have been shown to be important in translation relating to cellular growth, TH17-cell differentiation and translational accuracy. The finding that ribosomal oxygenases (ROXs) occur in organisms ranging from prokaryotes to humans raises questions as to their structural and evolutionary relationships. In Escherichia coli, YcfD catalyses arginine hydroxylation in the ribosomal protein L16; in humans, MYC-induced nuclear antigen (MINA53; also known as MINA) and nucleolar protein 66 (NO66) catalyse histidine hydroxylation in the ribosomal proteins RPL27A and RPL8, respectively. The functional assignments of ROXs open therapeutic possibilities via either ROX inhibition or targeting of differentially modified ribosomes. Despite differences in the residue and protein selectivities of prokaryotic and eukaryotic ROXs, comparison of the crystal structures of E. coli YcfD and Rhodothermus marinus YcfD with those of human MINA53 and NO66 reveals highly conserved folds and novel dimerization modes defining a new structural subfamily of 2OG-dependent oxygenases. ROX structures with and without their substrates support their functional assignments as hydroxylases but not demethylases, and reveal how the subfamily has evolved to catalyse the hydroxylation of different residue side chains of ribosomal proteins. Comparison of ROX crystal structures with those of other JmjC-domain-containing hydroxylases, including the hypoxia-inducible factor asparaginyl hydroxylase FIH and histone Nepsilon-methyl lysine demethylases, identifies branch points in 2OG-dependent oxygenase evolution and distinguishes between JmjC-containing hydroxylases and demethylases catalysing modifications of translational and transcriptional machinery. The structures reveal that new protein hydroxylation activities can evolve by changing the coordination position from which the iron-bound substrate-oxidizing species reacts. This coordination flexibility has probably contributed to the evolution of the wide range of reactions catalysed by oxygenases.
		+
		+	Ribosomal oxygenases are structurally conserved from prokaryotes to humans.,Chowdhury R, Sekirnik R, Brissett NC, Krojer T, Ho CH, Ng SS, Clifton IJ, Ge W, Kershaw NJ, Fox GC, Muniz JR, Vollmar M, Phillips C, Pilka ES, Kavanagh KL, von Delft F, Oppermann U, McDonough MA, Doherty AJ, Schofield CJ Nature. 2014 May 11. doi: 10.1038/nature13263. PMID:24814345<ref>PMID:24814345</ref>
		+
		+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 07:32, 14 May 2014

2014-05-14T07:32:17Z

←Older revision		Revision as of 07:32, 14 May 2014
Line 7:		Line 7:
	<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=4csw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4csw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4csw RCSB], [http://www.ebi.ac.uk/pdbsum/4csw PDBsum]</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=4csw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4csw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4csw RCSB], [http://www.ebi.ac.uk/pdbsum/4csw PDBsum]</span></td></tr>
	<table>		<table>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 06:59, 14 May 2014

2014-05-14T06:59:09Z

←Older revision		Revision as of 06:59, 14 May 2014
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-	~~{{STRUCTURE_4csw\| PDB=4csw \| SCENE= }}~~	+	==Rhodothermus marinus YCFD-like ribosomal protein L16 Arginyl hydroxylase==
-	===Rhodothermus marinus YCFD-like ribosomal protein L16 Arginyl hydroxylase===	+	<StructureSection load='4csw' size='340' side='right' caption='[[4csw]], [[Resolution\|resolution]] 2.82Å' scene=''>
-		+	== Structural highlights ==
-	==~~About this Structure~~==	+	<table><tr><td colspan='2'>[[4csw]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhom4 Rhom4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSW OCA]. <br>
-	[[4csw]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSW OCA].	+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UN9:N-[(1-CHLORO-4-HYDROXYISOQUINOLIN-3-YL)CARBONYL]GLYCINE'>UN9</scene><br>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </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=4csw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4csw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4csw RCSB], [http://www.ebi.ac.uk/pdbsum/4csw PDBsum]</span></td></tr>
		+	<table>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Rhom4]]
	[[Category: McDonough, M A.]]		[[Category: McDonough, M A.]]
	[[Category: Schofield, C J.]]		[[Category: Schofield, C J.]]

OCA at 06:39, 9 April 2014

2014-04-09T06:39:34Z

←Older revision		Revision as of 06:39, 9 April 2014
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{STRUCTURE_4csw\| PDB=4csw \| SCENE= }}
		+	===Rhodothermus marinus YCFD-like ribosomal protein L16 Arginyl hydroxylase===

-	~~The entry~~ 4csw is ~~ON HOLD~~	+	==About this Structure==
-		+	[[4csw]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSW OCA].
-	~~Authors~~: McDonough, M.A.~~, Sekirnik, R.,~~ Schofield, C.J.	+	[[Category: McDonough, M A.]]
-		+	[[Category: Schofield, C J.]]
-	~~Description~~: ~~Rhodothermus marinus YCFD~~-~~like ribosomal protein L16 Arginyl hydroxylase~~	+	[[Category: Sekirnik, R.]]
		+	[[Category: 2-oxoglutarate and iron dependent oxygenase]]
		+	[[Category: Double stranded beta helix fold]]
		+	[[Category: Oxidoreductase]]