5h7e - Revision history

OCA at 07:26, 9 August 2023

OCA — Wed, 09 Aug 2023 07:26:13 GMT

←Older revision		Revision as of 07:26, 9 August 2023
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	<StructureSection load='5h7e' size='340' side='right'caption='[[5h7e]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='5h7e' size='340' side='right'caption='[[5h7e]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5h7e]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H7E OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5H7E FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5h7e]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H7E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5H7E FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>~~, ~~<scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.6Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[5h7f\|5h7f]]~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=5h7e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h7e OCA], [~~http~~://pdbe.org/5h7e PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5h7e RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5h7e PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5h7e 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=5h7e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h7e OCA], [https://pdbe.org/5h7e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5h7e RCSB], [https://www.ebi.ac.uk/pdbsum/5h7e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5h7e ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/O32509_DEIRD O32509_DEIRD]] Hydrolyzes RNA 2',3'-cyclic phosphodiester to an RNA 2'-phosphomonoester.[HAMAP-Rule:MF_01940]	+	[https://www.uniprot.org/uniprot/O32509_DEIRD O32509_DEIRD] Hydrolyzes RNA 2',3'-cyclic phosphodiester to an RNA 2'-phosphomonoester.[HAMAP-Rule:MF_01940]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Deinococcus radiodurans]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Han, W]]	+	[[Category: Han W]]
-	[[Category: Hua, Y]]	+	[[Category: Hua Y]]
-	[[Category: Zhao, Y]]	+	[[Category: Zhao Y]]
-	~~[[Category: -cyclic phosphodiesterase]]~~	+
-	~~[[Category: Cpdase]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Rna repair~~]]	+

OCA at 06:54, 20 May 2020

OCA — Wed, 20 May 2020 06:54:22 GMT

←Older revision		Revision as of 06:54, 20 May 2020
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	==Crystal Structure of native drCPDase==		==Crystal Structure of native drCPDase==
-	<StructureSection load='5h7e' size='340' side='right' caption='[[5h7e]], [[Resolution\|resolution]] 1.60Å' scene=''>	+	<StructureSection load='5h7e' size='340' side='right'caption='[[5h7e]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5h7e]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H7E OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5H7E FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5h7e]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H7E OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5H7E FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5h7f\|5h7f]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5h7f\|5h7f]]</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=5h7e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h7e OCA], [http://pdbe.org/5h7e PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h7e RCSB], [http://www.ebi.ac.uk/pdbsum/5h7e PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h7e 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=5h7e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h7e OCA], [http://pdbe.org/5h7e PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h7e RCSB], [http://www.ebi.ac.uk/pdbsum/5h7e PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h7e ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Han, W]]		[[Category: Han, W]]
	[[Category: Hua, Y]]		[[Category: Hua, Y]]

OCA at 10:16, 27 September 2017

OCA — Wed, 27 Sep 2017 10:16:12 GMT

←Older revision		Revision as of 10:16, 27 September 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5h7e is ~~ON HOLD until Paper~~ Publication	+	==Crystal Structure of native drCPDase==
		+	<StructureSection load='5h7e' size='340' side='right' caption='[[5h7e]], [[Resolution\|resolution]] 1.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5h7e]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H7E OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5H7E FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5h7f\|5h7f]]</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=5h7e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h7e OCA], [http://pdbe.org/5h7e PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h7e RCSB], [http://www.ebi.ac.uk/pdbsum/5h7e PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h7e ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/O32509_DEIRD O32509_DEIRD]] Hydrolyzes RNA 2',3'-cyclic phosphodiester to an RNA 2'-phosphomonoester.[HAMAP-Rule:MF_01940]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	2',3'-Cyclic phosphodiesterase (CPDase) homologues have been found in all domains of life and are involved in diverse RNA and nucleotide metabolisms. The CPDase from Deinococcus radiodurans was crystallized and the crystals diffracted to 1.6 A resolution, which is the highest resolution currently known for a CPDase structure. Structural comparisons revealed that the enzyme is in an open conformation in the absence of substrate. Nevertheless, the active site is well formed, and the representative motifs interact with sulfate ion, which suggests a conserved catalytic mechanism.

-	~~Authors: Han~~, W., ~~Hua~~, Y., Zhao, Y.	+	Crystal structure of the RNA 2',3'-cyclic phosphodiesterase from Deinococcus radiodurans.,Han W, Cheng J, Zhou C, Hua Y, Zhao Y Acta Crystallogr F Struct Biol Commun. 2017 May 1;73(Pt 5):276-280. doi:, 10.1107/S2053230X17004964. Epub 2017 Apr 26. PMID:28471359<ref>PMID:28471359</ref>

-	~~Description: Crystal Structure~~ of ~~native drCPDase~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Zhao, Y]]~~	+	<div class="pdbe-citations 5h7e" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Han, W]]		[[Category: Han, W]]
	[[Category: Hua, Y]]		[[Category: Hua, Y]]
		+	[[Category: Zhao, Y]]
		+	[[Category: -cyclic phosphodiesterase]]
		+	[[Category: Cpdase]]
		+	[[Category: Hydrolase]]
		+	[[Category: Rna repair]]

OCA: Protected "5h7e" [edit=sysop:move=sysop]

OCA — Fri, 09 Dec 2016 13:50:25 GMT

Protected "5h7e" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:50, 9 December 2016

OCA: New page: '''Unreleased structure''' The entry 5h7e is ON HOLD until Paper Publication Authors: Han, W., Hua, Y., Zhao, Y. Description: Crystal Structure of native drCPDase [[Category: Unrelease...

OCA — Fri, 09 Dec 2016 13:50:23 GMT

New page: '''Unreleased structure''' The entry 5h7e is ON HOLD until Paper Publication Authors: Han, W., Hua, Y., Zhao, Y. Description: Crystal Structure of native drCPDase [[Category: Unrelease...

New page

'''Unreleased structure'''

The entry 5h7e is ON HOLD until Paper Publication

Authors: Han, W., Hua, Y., Zhao, Y.

Description: Crystal Structure of native drCPDase
[[Category: Unreleased Structures]]
[[Category: Zhao, Y]]
[[Category: Han, W]]
[[Category: Hua, Y]]