3re4 - Revision history

OCA at 10:53, 21 February 2024

OCA — Wed, 21 Feb 2024 10:53:56 GMT

←Older revision		Revision as of 10:53, 21 February 2024
Line 3:		Line 3:
	<StructureSection load='3re4' size='340' side='right'caption='[[3re4]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='3re4' size='340' side='right'caption='[[3re4]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3re4]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Arcfl Arcfl~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RE4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RE4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3re4]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RE4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RE4 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=TO1:4~~-~~AMINO-7-(BETA-D-RIBOFURANOSYL)-7H-PYRROLO[2~~,~~3-D]PYRIMIDINE-5-CARBONITRILE'>TO1</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]] 1.997Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[1zp9\|1zp9]], [[1ztf\|1ztf]], [[1zth\|1zth]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TO1:4-AMINO-7-(BETA-D-RIBOFURANOSYL)-7H-PYRROLO[2,3-D]PYRIMIDINE-5-CARBONITRILE'>TO1</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>rio1, AF_1804 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id~~=2234 ARCFL])</td></tr>~~	+
-	~~<tr id='activity'><td class~~="~~sblockLbl~~"><~~b>Activity:</b></td><td class~~=~~"sblockDat"><span class~~=~~'plainlinks'>[https~~:~~//en.wikipedia.org/wiki/Non~~-~~specific_serine/threonine_protein_kinase Non~~-~~specific serine/threonine protein kinase]~~, ~~with EC number [https://www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=2.7.11.1 2.7.11.1~~] </~~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=3re4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3re4 OCA], [https://pdbe.org/3re4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3re4 RCSB], [https://www.ebi.ac.uk/pdbsum/3re4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3re4 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=3re4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3re4 OCA], [https://pdbe.org/3re4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3re4 RCSB], [https://www.ebi.ac.uk/pdbsum/3re4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3re4 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/RIO1_ARCFU RIO1_ARCFU]] Autophosphorylation of the rio1 protein is not necessary for maintenance of kinase activity. Prefers ATP over GTP. The yeast ortholog is involved in ribosome biogenesis.	+	[https://www.uniprot.org/uniprot/RIO1_ARCFU RIO1_ARCFU] Autophosphorylation of the rio1 protein is not necessary for maintenance of kinase activity. Prefers ATP over GTP. The yeast ortholog is involved in ribosome biogenesis.
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	Rio1 kinase is an essential ribosome-processing factor required for proper maturation of 40 S ribosomal subunit. Although its structure is known, several questions regarding its functional remain to be addressed. We report that both Archaeoglobus fulgidus and human Rio1 bind more tightly to an adenosine analog, toyocamycin, than to ATP. Toyocamycin has antibiotic, antiviral and cytotoxic properties, and is known to inhibit ribosome biogenesis, specifically the maturation of 40 S. We determined the X-ray crystal structure of toyocamycin bound to Rio1 at 2.0 A and demonstrated that toyocamycin binds in the ATP binding pocket of the protein. Despite this, measured steady state kinetics were inconsistent with strict competitive inhibition by toyocamycin. In analyzing this interaction, we discovered that Rio1 is capable of accessing multiple distinct oligomeric states and that toyocamycin may inhibit Rio1 by stabilizing a less catalytically active oligomer. We also present evidence of substrate inhibition by high concentrations of ATP for both archaeal and human Rio1. Oligomeric state studies show both proteins access a higher order oligomeric state in the presence of ATP. The study revealed that autophosphorylation by Rio1 reduces oligomer formation and promotes monomerization, resulting in the most active species. Taken together, these results suggest the activity of Rio1 may be modulated by regulating its oligomerization properties in a conserved mechanism, identifies the first ribosome processing target of toyocamycin and presents the first small molecule inhibitor of Rio1 kinase activity.	+
-		+
-	Interaction of rio1 kinase with toyocamycin reveals a conformational switch that controls oligomeric state and catalytic activity.,Kiburu IN, Laronde-Leblanc N PLoS One. 2012;7(5):e37371. Epub 2012 May 22. PMID:22629386<ref>PMID:22629386</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 3re4" style="background-color:#fffaf0;"></div>~~	+
-	~~== References ==~~	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Arcfl~~]]	+	[[Category: Archaeoglobus fulgidus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Non-specific serine/threonine protein kinase]]~~	+	[[Category: Kiburu IN]]
-	[[Category: Kiburu~~, I N~~]]	+	[[Category: LaRonde-LeBlanc N]]
-	[[Category: LaRonde-LeBlanc, N]]	+
-	~~[[Category: Atypical kinase]]~~	+
-	~~[[Category: Transferase-antibiotic complex~~]]	+

OCA at 05:59, 15 June 2022

OCA — Wed, 15 Jun 2022 05:59:40 GMT

←Older revision		Revision as of 05:59, 15 June 2022
Line 1:		Line 1:

	==Crystal Structure of Archaeoglobus Fulgidus Rio1 Kinase bound to Toyocamycin.==		==Crystal Structure of Archaeoglobus Fulgidus Rio1 Kinase bound to Toyocamycin.==
-	<StructureSection load='3re4' size='340' side='right' caption='[[3re4]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='3re4' size='340' side='right'caption='[[3re4]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3re4]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Arcfl Arcfl]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RE4 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3RE4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3re4]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Arcfl Arcfl]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RE4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RE4 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TO1:4-AMINO-7-(BETA-D-RIBOFURANOSYL)-7H-PYRROLO[2,3-D]PYRIMIDINE-5-CARBONITRILE'>TO1</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TO1:4-AMINO-7-(BETA-D-RIBOFURANOSYL)-7H-PYRROLO[2,3-D]PYRIMIDINE-5-CARBONITRILE'>TO1</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1zp9\|1zp9]], [[1ztf\|1ztf]], [[1zth\|1zth]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1zp9\|1zp9]], [[1ztf\|1ztf]], [[1zth\|1zth]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">rio1, AF_1804 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 ARCFL])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">rio1, AF_1804 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 ARCFL])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Non-specific_serine/threonine_protein_kinase Non-specific serine/threonine protein kinase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.1 2.7.11.1] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Non-specific_serine/threonine_protein_kinase Non-specific serine/threonine protein kinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.1 2.7.11.1] </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=3re4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3re4 OCA], [~~http~~://pdbe.org/3re4 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3re4 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3re4 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3re4 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=3re4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3re4 OCA], [https://pdbe.org/3re4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3re4 RCSB], [https://www.ebi.ac.uk/pdbsum/3re4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3re4 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/RIO1_ARCFU RIO1_ARCFU]] Autophosphorylation of the rio1 protein is not necessary for maintenance of kinase activity. Prefers ATP over GTP. The yeast ortholog is involved in ribosome biogenesis.	+	[[https://www.uniprot.org/uniprot/RIO1_ARCFU RIO1_ARCFU]] Autophosphorylation of the rio1 protein is not necessary for maintenance of kinase activity. Prefers ATP over GTP. The yeast ortholog is involved in ribosome biogenesis.
	<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: Arcfl]]		[[Category: Arcfl]]
		+	[[Category: Large Structures]]
	[[Category: Non-specific serine/threonine protein kinase]]		[[Category: Non-specific serine/threonine protein kinase]]
	[[Category: Kiburu, I N]]		[[Category: Kiburu, I N]]

OCA at 19:53, 4 August 2016

OCA — Thu, 04 Aug 2016 19:53:15 GMT

←Older revision		Revision as of 19:53, 4 August 2016
Line 1:		Line 1:
		+
	==Crystal Structure of Archaeoglobus Fulgidus Rio1 Kinase bound to Toyocamycin.==		==Crystal Structure of Archaeoglobus Fulgidus Rio1 Kinase bound to Toyocamycin.==
	<StructureSection load='3re4' size='340' side='right' caption='[[3re4]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='3re4' size='340' side='right' caption='[[3re4]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3re4]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Archaeoglobus_fulgidus Archaeoglobus fulgidus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RE4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RE4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3re4]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Arcfl Arcfl]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RE4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RE4 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TO1:4-AMINO-7-(BETA-D-RIBOFURANOSYL)-7H-PYRROLO[2,3-D]PYRIMIDINE-5-CARBONITRILE'>TO1</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TO1:4-AMINO-7-(BETA-D-RIBOFURANOSYL)-7H-PYRROLO[2,3-D]PYRIMIDINE-5-CARBONITRILE'>TO1</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1zp9\|1zp9]], [[1ztf\|1ztf]], [[1zth\|1zth]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1zp9\|1zp9]], [[1ztf\|1ztf]], [[1zth\|1zth]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">rio1, AF_1804 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 ~~Archaeoglobus fulgidus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">rio1, AF_1804 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 ARCFL])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-specific_serine/threonine_protein_kinase Non-specific serine/threonine protein kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.1 2.7.11.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-specific_serine/threonine_protein_kinase Non-specific serine/threonine protein kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.1 2.7.11.1] </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=3re4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3re4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3re4 RCSB], [http://www.ebi.ac.uk/pdbsum/3re4 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=3re4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3re4 OCA], [http://pdbe.org/3re4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3re4 RCSB], [http://www.ebi.ac.uk/pdbsum/3re4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3re4 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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 3re4" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Archaeoglobus fulgidus~~]]	+	[[Category: Arcfl]]
	[[Category: Non-specific serine/threonine protein kinase]]		[[Category: Non-specific serine/threonine protein kinase]]
	[[Category: Kiburu, I N]]		[[Category: Kiburu, I N]]

OCA at 12:35, 25 December 2014

OCA — Thu, 25 Dec 2014 12:35:30 GMT

←Older revision		Revision as of 12:35, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3re4]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RE4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RE4 FirstGlance]. <br>		<table><tr><td colspan='2'>[[3re4]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RE4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RE4 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TO1:4-AMINO-7-(BETA-D-RIBOFURANOSYL)-7H-PYRROLO[2,3-D]PYRIMIDINE-5-CARBONITRILE'>TO1</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TO1:4-AMINO-7-(BETA-D-RIBOFURANOSYL)-7H-PYRROLO[2,3-D]PYRIMIDINE-5-CARBONITRILE'>TO1</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1zp9\|1zp9]], [[1ztf\|1ztf]], [[1zth\|1zth]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1zp9\|1zp9]], [[1ztf\|1ztf]], [[1zth\|1zth]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">rio1, AF_1804 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 Archaeoglobus fulgidus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">rio1, AF_1804 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 Archaeoglobus fulgidus])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-specific_serine/threonine_protein_kinase Non-specific serine/threonine protein kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.1 2.7.11.1] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-specific_serine/threonine_protein_kinase Non-specific serine/threonine protein kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.1 2.7.11.1] </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=3re4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3re4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3re4 RCSB], [http://www.ebi.ac.uk/pdbsum/3re4 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=3re4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3re4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3re4 RCSB], [http://www.ebi.ac.uk/pdbsum/3re4 PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RIO1_ARCFU RIO1_ARCFU]] Autophosphorylation of the rio1 protein is not necessary for maintenance of kinase activity. Prefers ATP over GTP. The yeast ortholog is involved in ribosome biogenesis.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 15:		Line 17:
	Interaction of rio1 kinase with toyocamycin reveals a conformational switch that controls oligomeric state and catalytic activity.,Kiburu IN, Laronde-Leblanc N PLoS One. 2012;7(5):e37371. Epub 2012 May 22. PMID:22629386<ref>PMID:22629386</ref>		Interaction of rio1 kinase with toyocamycin reveals a conformational switch that controls oligomeric state and catalytic activity.,Kiburu IN, Laronde-Leblanc N PLoS One. 2012;7(5):e37371. Epub 2012 May 22. PMID:22629386<ref>PMID:22629386</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: Archaeoglobus fulgidus]]		[[Category: Archaeoglobus fulgidus]]
	[[Category: Non-specific serine/threonine protein kinase]]		[[Category: Non-specific serine/threonine protein kinase]]
-	[[Category: Kiburu, I N.]]	+	[[Category: Kiburu, I N]]
-	[[Category: LaRonde-LeBlanc, N.]]	+	[[Category: LaRonde-LeBlanc, N]]
	[[Category: Atypical kinase]]		[[Category: Atypical kinase]]
	[[Category: Transferase-antibiotic complex]]		[[Category: Transferase-antibiotic complex]]

OCA at 04:51, 5 June 2014

OCA — Thu, 05 Jun 2014 04:51:22 GMT

←Older revision		Revision as of 04:51, 5 June 2014
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-	[[~~Image:~~3re4.~~png~~\|~~left~~\|~~200px~~]]	+	==Crystal Structure of Archaeoglobus Fulgidus Rio1 Kinase bound to Toyocamycin.==
		+	<StructureSection load='3re4' size='340' side='right' caption='[[3re4]], [[Resolution\|resolution]] 2.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3re4]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RE4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RE4 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TO1:4-AMINO-7-(BETA-D-RIBOFURANOSYL)-7H-PYRROLO[2,3-D]PYRIMIDINE-5-CARBONITRILE'>TO1</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1zp9\|1zp9]], [[1ztf\|1ztf]], [[1zth\|1zth]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">rio1, AF_1804 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 Archaeoglobus fulgidus])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-specific_serine/threonine_protein_kinase Non-specific serine/threonine protein kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.1 2.7.11.1] </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=3re4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3re4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3re4 RCSB], [http://www.ebi.ac.uk/pdbsum/3re4 PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Rio1 kinase is an essential ribosome-processing factor required for proper maturation of 40 S ribosomal subunit. Although its structure is known, several questions regarding its functional remain to be addressed. We report that both Archaeoglobus fulgidus and human Rio1 bind more tightly to an adenosine analog, toyocamycin, than to ATP. Toyocamycin has antibiotic, antiviral and cytotoxic properties, and is known to inhibit ribosome biogenesis, specifically the maturation of 40 S. We determined the X-ray crystal structure of toyocamycin bound to Rio1 at 2.0 A and demonstrated that toyocamycin binds in the ATP binding pocket of the protein. Despite this, measured steady state kinetics were inconsistent with strict competitive inhibition by toyocamycin. In analyzing this interaction, we discovered that Rio1 is capable of accessing multiple distinct oligomeric states and that toyocamycin may inhibit Rio1 by stabilizing a less catalytically active oligomer. We also present evidence of substrate inhibition by high concentrations of ATP for both archaeal and human Rio1. Oligomeric state studies show both proteins access a higher order oligomeric state in the presence of ATP. The study revealed that autophosphorylation by Rio1 reduces oligomer formation and promotes monomerization, resulting in the most active species. Taken together, these results suggest the activity of Rio1 may be modulated by regulating its oligomerization properties in a conserved mechanism, identifies the first ribosome processing target of toyocamycin and presents the first small molecule inhibitor of Rio1 kinase activity.

-	~~{{STRUCTURE_3re4\| PDB=3re4 \| SCENE= }}~~	+	Interaction of rio1 kinase with toyocamycin reveals a conformational switch that controls oligomeric state and catalytic activity.,Kiburu IN, Laronde-Leblanc N PLoS One. 2012;7(5):e37371. Epub 2012 May 22. PMID:22629386<ref>PMID:22629386</ref>

-	~~===Crystal Structure~~ of ~~Archaeoglobus Fulgidus Rio1 Kinase bound to Toyocamycin~~.~~===~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_22629386}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[3re4]] is a 2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org~~/~~wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RE4 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:022629386<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Archaeoglobus fulgidus]]		[[Category: Archaeoglobus fulgidus]]
	[[Category: Non-specific serine/threonine protein kinase]]		[[Category: Non-specific serine/threonine protein kinase]]

OCA at 07:45, 20 June 2012

OCA — Wed, 20 Jun 2012 07:45:16 GMT

←Older revision		Revision as of 07:45, 20 June 2012
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	[[Image:3re4.png\|left\|200px]]		[[Image:3re4.png\|left\|200px]]

-	<!--
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-	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_3re4\| PDB=3re4 \| SCENE= }}		{{STRUCTURE_3re4\| PDB=3re4 \| SCENE= }}

	===Crystal Structure of Archaeoglobus Fulgidus Rio1 Kinase bound to Toyocamycin.===		===Crystal Structure of Archaeoglobus Fulgidus Rio1 Kinase bound to Toyocamycin.===

-
-	<!--
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-	(as it appears on PubMed at http://www.pubmed.gov), where 22629386 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_22629386}}		{{ABSTRACT_PUBMED_22629386}}

OCA at 06:49, 20 June 2012

OCA — Wed, 20 Jun 2012 06:49:51 GMT

←Older revision		Revision as of 06:49, 20 June 2012
Line 1:		Line 1:
-	[[Image:3re4.~~jpg~~\|left\|200px]]	+	[[Image:3re4.png\|left\|200px]]

	<!--		<!--
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	===Crystal Structure of Archaeoglobus Fulgidus Rio1 Kinase bound to Toyocamycin.===		===Crystal Structure of Archaeoglobus Fulgidus Rio1 Kinase bound to Toyocamycin.===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_22629386}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 22629386 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_22629386}}

	==About this Structure==		==About this Structure==
	[[3re4]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RE4 OCA].		[[3re4]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RE4 OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:022629386</ref><references group="xtra"/>
	[[Category: Archaeoglobus fulgidus]]		[[Category: Archaeoglobus fulgidus]]
	[[Category: Non-specific serine/threonine protein kinase]]		[[Category: Non-specific serine/threonine protein kinase]]

OCA at 09:18, 9 May 2012

OCA — Wed, 09 May 2012 09:18:43 GMT

←Older revision		Revision as of 09:18, 9 May 2012
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-	~~'''Unreleased structure'''~~	+	[[Image:3re4.jpg\|left\|200px]]

-	The ~~entry 3re4~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3re4", 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_3re4\| PDB=3re4 \| SCENE= }}

-	~~Authors: Kiburu, I.N., LaRonde-LeBlanc, N~~.	+	===Crystal Structure of Archaeoglobus Fulgidus Rio1 Kinase bound to Toyocamycin.===

-	~~Description: Crystal~~ Structure of Archaeoglobus ~~Fulgidus Rio1 Kinase bound to Toyocamycin~~.	+
		+	==About this Structure==
		+	[[3re4]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RE4 OCA].
		+	[[Category: Archaeoglobus fulgidus]]
		+	[[Category: Non-specific serine/threonine protein kinase]]
		+	[[Category: Kiburu, I N.]]
		+	[[Category: LaRonde-LeBlanc, N.]]
		+	[[Category: Atypical kinase]]
		+	[[Category: Transferase-antibiotic complex]]

OCA at 05:07, 25 May 2011

OCA — Wed, 25 May 2011 05:07:13 GMT

←Older revision		Revision as of 05:07, 25 May 2011
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3re4 is ON HOLD	+	The entry 3re4 is ON HOLD until Paper Publication

	Authors: Kiburu, I.N., LaRonde-LeBlanc, N.		Authors: Kiburu, I.N., LaRonde-LeBlanc, N.

	Description: Crystal Structure of Archaeoglobus Fulgidus Rio1 Kinase bound to Toyocamycin.		Description: Crystal Structure of Archaeoglobus Fulgidus Rio1 Kinase bound to Toyocamycin.

OCA at 06:30, 4 May 2011

OCA — Wed, 04 May 2011 06:30:42 GMT

←Older revision		Revision as of 06:30, 4 May 2011
Line 3:		Line 3:
	The entry 3re4 is ON HOLD		The entry 3re4 is ON HOLD

-	Authors: Kiburu, I.N., LaRonde-LeBlanc,N.	+	Authors: Kiburu, I.N., LaRonde-LeBlanc, N.

	Description: Crystal Structure of Archaeoglobus Fulgidus Rio1 Kinase bound to Toyocamycin.		Description: Crystal Structure of Archaeoglobus Fulgidus Rio1 Kinase bound to Toyocamycin.