4o8j - Revision history

OCA at 17:08, 20 September 2023

OCA — Wed, 20 Sep 2023 17:08:21 GMT

←Older revision		Revision as of 17:08, 20 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4o8j]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_horikoshii_OT3 Pyrococcus horikoshii OT3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4O8J FirstGlance]. <br>		<table><tr><td colspan='2'>[[4o8j]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_horikoshii_OT3 Pyrococcus horikoshii OT3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4O8J FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADN:ADENOSINE'>ADN</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</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]] 2.04Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADN:ADENOSINE'>ADN</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</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=4o8j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8j OCA], [https://pdbe.org/4o8j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4o8j RCSB], [https://www.ebi.ac.uk/pdbsum/4o8j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4o8j 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=4o8j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8j OCA], [https://pdbe.org/4o8j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4o8j RCSB], [https://www.ebi.ac.uk/pdbsum/4o8j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4o8j ProSAT]</span></td></tr>
	</table>		</table>

OCA at 09:00, 18 January 2023

OCA — Wed, 18 Jan 2023 09:00:31 GMT

←Older revision		Revision as of 09:00, 18 January 2023
Line 3:		Line 3:
	<StructureSection load='4o8j' size='340' side='right'caption='[[4o8j]], [[Resolution\|resolution]] 2.04Å' scene=''>		<StructureSection load='4o8j' size='340' side='right'caption='[[4o8j]], [[Resolution\|resolution]] 2.04Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4o8j]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Pyrococcus_horikoshii~~ Pyrococcus horikoshii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8J OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=4O8J FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4o8j]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_horikoshii_OT3 Pyrococcus horikoshii OT3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4O8J FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADN:ADENOSINE'>ADN</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADN:ADENOSINE'>ADN</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4o89\|4o89]]</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=4o8j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8j OCA], [https://pdbe.org/4o8j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4o8j RCSB], [https://www.ebi.ac.uk/pdbsum/4o8j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4o8j ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PH1529, PHCV028, rtcA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=70601 Pyrococcus horikoshii])</td></tr>	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-3'-phosphate_cyclase RNA-3'-phosphate cyclase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.5.1.4 6.5.1.4] </span></td></tr>	+
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=4o8j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8j OCA], [~~http~~://pdbe.org/4o8j PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4o8j RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4o8j PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4o8j ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/RTCA_PYRHO RTCA_PYRHO]] Catalyzes the conversion of 3'-phosphate to a 2',3'-cyclic phosphodiester at the end of RNA. The mechanism of action of the enzyme occurs in 3 steps: (A) adenylation of the enzyme by ATP; (B) transfer of adenylate to an RNA-N3'P to produce RNA-N3'PP5'A; (C) and attack of the adjacent 2'-hydroxyl on the 3'-phosphorus in the diester linkage to produce the cyclic end product. The biological role of this enzyme is unknown but it is likely to function in some aspects of cellular RNA processing (By similarity).	+	[https://www.uniprot.org/uniprot/RTCA_PYRHO RTCA_PYRHO] Catalyzes the conversion of 3'-phosphate to a 2',3'-cyclic phosphodiester at the end of RNA. The mechanism of action of the enzyme occurs in 3 steps: (A) adenylation of the enzyme by ATP; (B) transfer of adenylate to an RNA-N3'P to produce RNA-N3'PP5'A; (C) and attack of the adjacent 2'-hydroxyl on the 3'-phosphorus in the diester linkage to produce the cyclic end product. The biological role of this enzyme is unknown but it is likely to function in some aspects of cellular RNA processing (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 26:		Line 23:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Pyrococcus horikoshii]]	+	[[Category: Pyrococcus horikoshii OT3]]
-	~~[[Category: RNA-3'-phosphate cyclase~~]]	+	[[Category: Bingman CA]]
-	[[Category: Bingman~~, C A~~]]	+	[[Category: Desai KK]]
-	[[Category: Desai~~, K K~~]]	+	[[Category: Phillips Jr GN]]
-	[[Category: Phillips~~, G N~~]]	+	[[Category: Raines RT]]
-	[[Category: Raines~~, R T]]~~	+
-	~~[[Category: 3' rna cyclase]]~~	+
-	~~[[Category: Ligase-rna complex]]~~	+
-	~~[[Category: Rna~~]]	+

OCA at 11:18, 23 September 2020

OCA — Wed, 23 Sep 2020 11:18:42 GMT

←Older revision		Revision as of 11:18, 23 September 2020
Line 1:		Line 1:

	==Crystal structure of RtcA, the RNA 3'-terminal phosphate cyclase from Pyrococcus horikoshii, in complex with rACAAA3'phosphate and adenine.==		==Crystal structure of RtcA, the RNA 3'-terminal phosphate cyclase from Pyrococcus horikoshii, in complex with rACAAA3'phosphate and adenine.==
-	<StructureSection load='4o8j' size='340' side='right' caption='[[4o8j]], [[Resolution\|resolution]] 2.04Å' scene=''>	+	<StructureSection load='4o8j' size='340' side='right'caption='[[4o8j]], [[Resolution\|resolution]] 2.04Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4o8j]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_horikoshii Pyrococcus horikoshii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8J OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4O8J FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4o8j]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_horikoshii Pyrococcus horikoshii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8J OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=4O8J FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADN:ADENOSINE'>ADN</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADN:ADENOSINE'>ADN</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4o89\|4o89]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4o89\|4o89]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PH1529, PHCV028, rtcA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=70601 Pyrococcus horikoshii])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PH1529, PHCV028, rtcA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=70601 Pyrococcus horikoshii])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-3'-phosphate_cyclase RNA-3'-phosphate cyclase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.5.1.4 6.5.1.4] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-3'-phosphate_cyclase RNA-3'-phosphate cyclase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.5.1.4 6.5.1.4] </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=4o8j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8j OCA], [http://pdbe.org/4o8j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4o8j RCSB], [http://www.ebi.ac.uk/pdbsum/4o8j PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4o8j ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=4o8j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8j OCA], [http://pdbe.org/4o8j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4o8j RCSB], [http://www.ebi.ac.uk/pdbsum/4o8j PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4o8j ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 25:		Line 25:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Pyrococcus horikoshii]]		[[Category: Pyrococcus horikoshii]]
	[[Category: RNA-3'-phosphate cyclase]]		[[Category: RNA-3'-phosphate cyclase]]
	[[Category: Bingman, C A]]		[[Category: Bingman, C A]]
	[[Category: Desai, K K]]		[[Category: Desai, K K]]
-	[[Category: Jr, G N~~.Phillips~~]]	+	[[Category: Phillips, G N]]
	[[Category: Raines, R T]]		[[Category: Raines, R T]]
	[[Category: 3' rna cyclase]]		[[Category: 3' rna cyclase]]
	[[Category: Ligase-rna complex]]		[[Category: Ligase-rna complex]]
	[[Category: Rna]]		[[Category: Rna]]

OCA at 07:20, 29 November 2017

OCA — Wed, 29 Nov 2017 07:20:47 GMT

←Older revision		Revision as of 07:20, 29 November 2017
Line 3:		Line 3:
	<StructureSection load='4o8j' size='340' side='right' caption='[[4o8j]], [[Resolution\|resolution]] 2.04Å' scene=''>		<StructureSection load='4o8j' size='340' side='right' caption='[[4o8j]], [[Resolution\|resolution]] 2.04Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4o8j]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4O8J FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4o8j]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_horikoshii Pyrococcus horikoshii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4O8J FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADN:ADENOSINE'>ADN</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADN:ADENOSINE'>ADN</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[~~4089~~\|~~4089~~]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4o89\|4o89]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PH1529, PHCV028, rtcA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=70601 Pyrococcus horikoshii])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-3'-phosphate_cyclase RNA-3'-phosphate cyclase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.5.1.4 6.5.1.4] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-3'-phosphate_cyclase RNA-3'-phosphate cyclase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.5.1.4 6.5.1.4] </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=4o8j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8j OCA], [http://pdbe.org/4o8j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4o8j RCSB], [http://www.ebi.ac.uk/pdbsum/4o8j PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4o8j ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4o8j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8j OCA], [http://pdbe.org/4o8j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4o8j RCSB], [http://www.ebi.ac.uk/pdbsum/4o8j PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4o8j ProSAT]</span></td></tr>
Line 24:		Line 25:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Pyrococcus horikoshii]]
	[[Category: RNA-3'-phosphate cyclase]]		[[Category: RNA-3'-phosphate cyclase]]
	[[Category: Bingman, C A]]		[[Category: Bingman, C A]]

OCA at 19:56, 4 August 2016

OCA — Thu, 04 Aug 2016 19:56:16 GMT

←Older revision		Revision as of 19:56, 4 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of RtcA, the RNA 3'-terminal phosphate cyclase from Pyrococcus horikoshii, in complex with rACAAA3'phosphate and adenine.==		==Crystal structure of RtcA, the RNA 3'-terminal phosphate cyclase from Pyrococcus horikoshii, in complex with rACAAA3'phosphate and adenine.==
	<StructureSection load='4o8j' size='340' side='right' caption='[[4o8j]], [[Resolution\|resolution]] 2.04Å' scene=''>		<StructureSection load='4o8j' size='340' side='right' caption='[[4o8j]], [[Resolution\|resolution]] 2.04Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4089\|4089]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4089\|4089]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-3'-phosphate_cyclase RNA-3'-phosphate cyclase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.5.1.4 6.5.1.4] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-3'-phosphate_cyclase RNA-3'-phosphate cyclase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.5.1.4 6.5.1.4] </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=4o8j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4o8j RCSB], [http://www.ebi.ac.uk/pdbsum/4o8j 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=4o8j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8j OCA], [http://pdbe.org/4o8j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4o8j RCSB], [http://www.ebi.ac.uk/pdbsum/4o8j PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4o8j ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	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 4o8j" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 19:03, 24 December 2014

OCA — Wed, 24 Dec 2014 19:03:09 GMT

←Older revision		Revision as of 19:03, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4o8j]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4O8J FirstGlance]. <br>		<table><tr><td colspan='2'>[[4o8j]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4O8J FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADN:ADENOSINE'>ADN</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADN:ADENOSINE'>ADN</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4089\|4089]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4089\|4089]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-3'-phosphate_cyclase RNA-3'-phosphate cyclase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.5.1.4 6.5.1.4] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-3'-phosphate_cyclase RNA-3'-phosphate cyclase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.5.1.4 6.5.1.4] </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=4o8j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4o8j RCSB], [http://www.ebi.ac.uk/pdbsum/4o8j 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=4o8j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4o8j RCSB], [http://www.ebi.ac.uk/pdbsum/4o8j PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RTCA_PYRHO RTCA_PYRHO]] Catalyzes the conversion of 3'-phosphate to a 2',3'-cyclic phosphodiester at the end of RNA. The mechanism of action of the enzyme occurs in 3 steps: (A) adenylation of the enzyme by ATP; (B) transfer of adenylate to an RNA-N3'P to produce RNA-N3'PP5'A; (C) and attack of the adjacent 2'-hydroxyl on the 3'-phosphorus in the diester linkage to produce the cyclic end product. The biological role of this enzyme is unknown but it is likely to function in some aspects of cellular RNA processing (By similarity).
	<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: RNA-3'-phosphate cyclase]]		[[Category: RNA-3'-phosphate cyclase]]
-	[[Category: Bingman, C A.]]	+	[[Category: Bingman, C A]]
-	[[Category: Desai, K K.]]	+	[[Category: Desai, K K]]
-	[[Category: Jr, G N.Phillips.]]	+	[[Category: Jr, G N.Phillips]]
-	[[Category: Raines, R T.]]	+	[[Category: Raines, R T]]
	[[Category: 3' rna cyclase]]		[[Category: 3' rna cyclase]]
	[[Category: Ligase-rna complex]]		[[Category: Ligase-rna complex]]
	[[Category: Rna]]		[[Category: Rna]]

OCA at 09:56, 10 September 2014

OCA — Wed, 10 Sep 2014 09:56:13 GMT

←Older revision		Revision as of 09:56, 10 September 2014
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Crystal structure of RtcA, the RNA 3'-terminal phosphate cyclase from Pyrococcus horikoshii, in complex with rACAAA3'phosphate and adenine.==
		+	<StructureSection load='4o8j' size='340' side='right' caption='[[4o8j]], [[Resolution\|resolution]] 2.04Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4o8j]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4O8J FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADN:ADENOSINE'>ADN</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4089\|4089]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-3'-phosphate_cyclase RNA-3'-phosphate cyclase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.5.1.4 6.5.1.4] </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=4o8j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4o8j RCSB], [http://www.ebi.ac.uk/pdbsum/4o8j PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	RNA 3'-phosphate cyclase (RtcA) catalyzes the ATP-dependent cyclization of a 3'-phosphate to form a 2',3'-cyclic phosphate at RNA termini. Cyclization proceeds through RtcA-AMP and RNA(3')pp(5')A covalent intermediates, which are analogous to intermediates formed during catalysis by the tRNA ligase RtcB. Here we present a crystal structure of Pyrococcus horikoshii RtcA in complex with a 3'-phosphate terminated RNA and adenosine in the AMP-binding pocket. Our data reveal that RtcA recognizes substrate RNA by ensuring that the terminal 3'-phosphate makes a large contribution to RNA binding. Furthermore, the RNA 3'-phosphate is poised for in-line attack on the P-N bond that links the phosphorous atom of AMP to N of His307. Thus, we provide the first insights into RNA 3'-phosphate termini recognition and the mechanism of 3'-phosphate activation by an Rtc enzyme.

-	~~The entry 4o8j is ON HOLD~~	+	Structure of RNA 3'-phosphate cyclase bound to substrate RNA.,Desai KK, Bingman CA, Cheng CL, Phillips GN Jr, Raines RT RNA. 2014 Aug 26. PMID:25161314<ref>PMID:25161314</ref>

-	~~Authors: Desai~~, K.K., Bingman, C.A., ~~Phillips~~ Jr, G.N., Raines, R.T.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~Crystal structure of RtcA, the RNA~~ 3'~~-terminal phosphate~~ cyclase ~~from Pyrococcus horikoshii, in~~ complex ~~with rACAAA3'phosphate and adenine.~~	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: RNA-3'-phosphate cyclase]]
		+	[[Category: Bingman, C A.]]
		+	[[Category: Desai, K K.]]
		+	[[Category: Jr, G N.Phillips.]]
		+	[[Category: Raines, R T.]]
		+	[[Category: 3' rna cyclase]]
		+	[[Category: Ligase-rna complex]]
		+	[[Category: Rna]]

OCA at 07:42, 15 January 2014

OCA — Wed, 15 Jan 2014 07:42:48 GMT

←Older revision		Revision as of 07:42, 15 January 2014
Line 3:		Line 3:
	The entry 4o8j is ON HOLD		The entry 4o8j is ON HOLD

-	Authors: Desai, K.K., Bingman, C.A., Phillips, G.N~~, Jr~~., Raines, R.T.	+	Authors: Desai, K.K., Bingman, C.A., Phillips Jr, G.N., Raines, R.T.

	Description: Crystal structure of RtcA, the RNA 3'-terminal phosphate cyclase from Pyrococcus horikoshii, in complex with rACAAA3'phosphate and adenine.		Description: Crystal structure of RtcA, the RNA 3'-terminal phosphate cyclase from Pyrococcus horikoshii, in complex with rACAAA3'phosphate and adenine.

OCA: Protected "4o8j" [edit=sysop:move=sysop]

OCA — Wed, 08 Jan 2014 09:28:05 GMT

Protected "4o8j" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:28, 8 January 2014

OCA: New page: '''Unreleased structure''' The entry 4o8j is ON HOLD Authors: Desai, K.K., Bingman, C.A., Phillips, G.N, Jr., Raines, R.T. Description: Crystal structure of RtcA, the RNA 3'-terminal p...

OCA — Wed, 08 Jan 2014 09:28:04 GMT

New page: '''Unreleased structure''' The entry 4o8j is ON HOLD Authors: Desai, K.K., Bingman, C.A., Phillips, G.N, Jr., Raines, R.T. Description: Crystal structure of RtcA, the RNA 3'-terminal p...

New page

'''Unreleased structure'''

The entry 4o8j is ON HOLD

Authors: Desai, K.K., Bingman, C.A., Phillips, G.N, Jr., Raines, R.T.

Description: Crystal structure of RtcA, the RNA 3'-terminal phosphate cyclase from Pyrococcus horikoshii, in complex with rACAAA3'phosphate and adenine.