7e8k - Revision history

OCA at 16:48, 29 November 2023

OCA — Wed, 29 Nov 2023 16:48:41 GMT

←Older revision		Revision as of 16:48, 29 November 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7e8k]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Planctomycetes_bacterium_GWF2_40_8 Planctomycetes bacterium GWF2_40_8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7E8K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7E8K FirstGlance]. <br>		<table><tr><td colspan='2'>[[7e8k]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Planctomycetes_bacterium_GWF2_40_8 Planctomycetes bacterium GWF2_40_8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7E8K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7E8K FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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]] 2.25Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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'>[https://proteopedia.org/fgij/fg.htm?mol=7e8k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7e8k OCA], [https://pdbe.org/7e8k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7e8k RCSB], [https://www.ebi.ac.uk/pdbsum/7e8k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7e8k 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=7e8k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7e8k OCA], [https://pdbe.org/7e8k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7e8k RCSB], [https://www.ebi.ac.uk/pdbsum/7e8k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7e8k ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/A0A1G2XP69_9BACT A0A1G2XP69_9BACT]] RNA-free RNase P that catalyzes the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'-terminus.[HAMAP-Rule:MF_01078]	+	[https://www.uniprot.org/uniprot/A0A1G2XP69_9BACT A0A1G2XP69_9BACT] RNA-free RNase P that catalyzes the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'-terminus.[HAMAP-Rule:MF_01078]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 7e8k" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 7e8k" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Ribonuclease 3D structures\|Ribonuclease 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 07:01, 14 September 2022

OCA — Wed, 14 Sep 2022 07:01:20 GMT

←Older revision		Revision as of 07:01, 14 September 2022
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	==Crystal structure of Proteinaceous RNase P (PRORP) from Planctomycetes bacterium GWF2_40_8==		==Crystal structure of Proteinaceous RNase P (PRORP) from Planctomycetes bacterium GWF2_40_8==
-	<StructureSection load='7e8k' size='340' side='right'caption='[[7e8k]]' scene=''>	+	<StructureSection load='7e8k' size='340' side='right'caption='[[7e8k]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7E8K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7E8K FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7e8k]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Planctomycetes_bacterium_GWF2_40_8 Planctomycetes bacterium GWF2_40_8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7E8K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7E8K FirstGlance]. <br>
-	</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=7e8k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7e8k OCA], [https://pdbe.org/7e8k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7e8k RCSB], [https://www.ebi.ac.uk/pdbsum/7e8k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7e8k ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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'>[https://proteopedia.org/fgij/fg.htm?mol=7e8k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7e8k OCA], [https://pdbe.org/7e8k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7e8k RCSB], [https://www.ebi.ac.uk/pdbsum/7e8k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7e8k ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[https://www.uniprot.org/uniprot/A0A1G2XP69_9BACT A0A1G2XP69_9BACT]] RNA-free RNase P that catalyzes the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'-terminus.[HAMAP-Rule:MF_01078]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Besides the canonical RNA-based RNase P, pre-tRNA 5'-end processing can also be catalyzed by protein-only RNase P (PRORP). To date, various PRORPs have been discovered, but the basis underlying substrate binding and cleavage by HARPs (homolog of Aquifex RNase P) remains elusive. Here, we report structural and biochemical studies of HARPs. Comparison of the apo- and pre-tRNA-complexed structures showed that HARP is able to undergo large conformational changes that facilitate pre-tRNA binding and catalytic site formation. Planctomycetes bacterium HARP exists as dimer in vitro, but gel filtration and electron microscopy analysis confirmed that HARPs from Thermococcus celer, Thermocrinis minervae and Thermocrinis ruber can assemble into larger oligomers. Structural analysis, mutagenesis and in vitro biochemical studies all supported one cooperative pre-tRNA processing mode, in which one HARP dimer binds pre-tRNA at the elbow region whereas 5'-end removal is catalyzed by the partner dimer. Our studies significantly advance our understanding on pre-tRNA processing by PRORPs.
		+
		+	Crystal structures and insights into precursor tRNA 5'-end processing by prokaryotic minimal protein-only RNase P.,Li Y, Su S, Gao Y, Lu G, Liu H, Chen X, Shao Z, Zhang Y, Shao Q, Zhao X, Yang J, Cao C, Lin J, Ma J, Gan J Nat Commun. 2022 Apr 28;13(1):2290. doi: 10.1038/s41467-022-30072-6. PMID:35484139<ref>PMID:35484139</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7e8k" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Planctomycetes bacterium GWF2_40_8]]
	[[Category: Gan JH]]		[[Category: Gan JH]]
	[[Category: Li YY]]		[[Category: Li YY]]

OCA at 06:16, 2 March 2022

OCA — Wed, 02 Mar 2022 06:16:27 GMT

←Older revision		Revision as of 06:16, 2 March 2022
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-	'''Unreleased structure'''

-	~~The entry~~ 7e8k ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of Proteinaceous RNase P (PRORP) from Planctomycetes bacterium GWF2_40_8==
-		+	<StructureSection load='7e8k' size='340' side='right'caption='[[7e8k]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7E8K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7E8K FirstGlance]. <br>
-	~~Description~~:	+	</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=7e8k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7e8k OCA], [https://pdbe.org/7e8k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7e8k RCSB], [https://www.ebi.ac.uk/pdbsum/7e8k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7e8k ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Gan JH]]
		+	[[Category: Li YY]]

OCA at 05:06, 10 November 2021

OCA — Wed, 10 Nov 2021 05:06:15 GMT

←Older revision		Revision as of 05:06, 10 November 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7e8k is ON HOLD	+	The entry 7e8k is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7e8k" [edit=sysop:move=sysop]

OCA — Wed, 10 Mar 2021 14:33:33 GMT

Protected "7e8k" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:33, 10 March 2021

OCA: New page: '''Unreleased structure''' The entry 7e8k is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 10 Mar 2021 14:33:31 GMT

New page: '''Unreleased structure''' The entry 7e8k is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7e8k is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]