OCA at 11:02, 15 November 2023

OCA — Wed, 15 Nov 2023 11:02:44 GMT

←Older revision		Revision as of 11:02, 15 November 2023
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-	====	+	==Rabbit 80S ribosome in complex with eRF1 and ABCE1 stalled at the STOP codon in the mutated SARS-CoV-2 slippery site==
-	<StructureSection load='7o80' size='340' side='right'caption='[[7o80]]' scene=''>	+	<StructureSection load='7o80' size='340' side='right'caption='[[7o80]], [[Resolution\|resolution]] 2.90Å' 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= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7o80]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Oryctolagus_cuniculus Oryctolagus cuniculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7O80 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7O80 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=7o80 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7o80 OCA], [https://pdbe.org/7o80 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7o80 RCSB], [https://www.ebi.ac.uk/pdbsum/7o80 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7o80 ProSAT]</span></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 2.9Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1MA:6-HYDRO-1-METHYLADENOSINE-5-MONOPHOSPHATE'>1MA</scene>, <scene name='pdbligand=4AC:N(4)-ACETYLCYTIDINE-5-MONOPHOSPHATE'>4AC</scene>, <scene name='pdbligand=5MC:5-METHYLCYTIDINE-5-MONOPHOSPHATE'>5MC</scene>, <scene name='pdbligand=5MU:5-METHYLURIDINE+5-MONOPHOSPHATE'>5MU</scene>, <scene name='pdbligand=6MZ:N6-METHYLADENOSINE-5-MONOPHOSPHATE'>6MZ</scene>, <scene name='pdbligand=A2M:2-O-METHYLADENOSINE+5-(DIHYDROGEN+PHOSPHATE)'>A2M</scene>, <scene name='pdbligand=AAC:ACETYLAMINO-ACETIC+ACID'>AAC</scene>, <scene name='pdbligand=AME:N-ACETYLMETHIONINE'>AME</scene>, <scene name='pdbligand=AYA:N-ACETYLALANINE'>AYA</scene>, <scene name='pdbligand=B8N:(2~{R})-2-azanyl-4-[5-[(2~{S},3~{R},4~{S},5~{R})-3,4-bis(oxidanyl)-5-(phosphonooxymethyl)oxolan-2-yl]-3-methyl-2,6-bis(oxidanylidene)pyrimidin-1-yl]butanoic+acid'>B8N</scene>, <scene name='pdbligand=G7M:N7-METHYL-GUANOSINE-5-MONOPHOSPHATE'>G7M</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=HIC:4-METHYL-HISTIDINE'>HIC</scene>, <scene name='pdbligand=HY3:3-HYDROXYPROLINE'>HY3</scene>, <scene name='pdbligand=M3L:N-TRIMETHYLLYSINE'>M3L</scene>, <scene name='pdbligand=MA6:6N-DIMETHYLADENOSINE-5-MONOPHOSHATE'>MA6</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MLZ:N-METHYL-LYSINE'>MLZ</scene>, <scene name='pdbligand=N:ANY+5-MONOPHOSPHATE+NUCLEOTIDE'>N</scene>, <scene name='pdbligand=NMM:(2S)-2-AMINO-5-[(N-METHYLCARBAMIMIDOYL)AMINO]PENTANOIC+ACID'>NMM</scene>, <scene name='pdbligand=OMC:O2-METHYLYCYTIDINE-5-MONOPHOSPHATE'>OMC</scene>, <scene name='pdbligand=OMG:O2-METHYLGUANOSINE-5-MONOPHOSPHATE'>OMG</scene>, <scene name='pdbligand=OMU:O2-METHYLURIDINE+5-MONOPHOSPHATE'>OMU</scene>, <scene name='pdbligand=PSU:PSEUDOURIDINE-5-MONOPHOSPHATE'>PSU</scene>, <scene name='pdbligand=SAC:N-ACETYL-SERINE'>SAC</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=SPD:SPERMIDINE'>SPD</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene>, <scene name='pdbligand=UR3:3-METHYLURIDINE-5-MONOPHOSHATE'>UR3</scene>, <scene name='pdbligand=UY1:2-O-methylpseudouridine-5-monophosphate'>UY1</scene>, <scene name='pdbligand=V5N:(2S,3S)-2-azanyl-3-(1H-imidazol-5-yl)-3-oxidanyl-propanoic+acid'>V5N</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=7o80 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7o80 OCA], [https://pdbe.org/7o80 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7o80 RCSB], [https://www.ebi.ac.uk/pdbsum/7o80 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7o80 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/G1SZ47_RABIT G1SZ47_RABIT]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Programmed ribosomal frameshifting is a key event during translation of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) RNA genome that allows synthesis of the viral RNA-dependent RNA polymerase and downstream proteins. Here, we present the cryo-electron microscopy structure of a translating mammalian ribosome primed for frameshifting on the viral RNA. The viral RNA adopts a pseudoknot structure that lodges at the entry to the ribosomal messenger RNA (mRNA) channel to generate tension in the mRNA and promote frameshifting, whereas the nascent viral polyprotein forms distinct interactions with the ribosomal tunnel. Biochemical experiments validate the structural observations and reveal mechanistic and regulatory features that influence frameshifting efficiency. Finally, we compare compounds previously shown to reduce frameshifting with respect to their ability to inhibit SARS-CoV-2 replication, establishing coronavirus frameshifting as a target for antiviral intervention.
		+
		+	Structural basis of ribosomal frameshifting during translation of the SARS-CoV-2 RNA genome.,Bhatt PR, Scaiola A, Loughran G, Leibundgut M, Kratzel A, Meurs R, Dreos R, O'Connor KM, McMillan A, Bode JW, Thiel V, Gatfield D, Atkins JF, Ban N Science. 2021 Jun 18;372(6548):1306-1313. doi: 10.1126/science.abf3546. Epub 2021 , May 13. PMID:34029205<ref>PMID:34029205</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7o80" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Ribosome 3D structures\|Ribosome 3D structures]]
		+	*[[3D sructureseceptor for activated protein kinase C 1\|3D sructureseceptor for activated protein kinase C 1]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Oryctolagus cuniculus]]
		+	[[Category: Atkins JF]]
		+	[[Category: Ban N]]
		+	[[Category: Bhatt PR]]
		+	[[Category: Leibundgut MA]]
		+	[[Category: Scaiola A]]

OCA at 14:37, 2 June 2021

OCA — Wed, 02 Jun 2021 14:37:00 GMT

←Older revision		Revision as of 14:37, 2 June 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 7o80 is ~~ON HOLD until sometime in~~ the ~~future~~	+	====
-		+	<StructureSection load='7o80' size='340' side='right'caption='[[7o80]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= 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=7o80 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7o80 OCA], [https://pdbe.org/7o80 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7o80 RCSB], [https://www.ebi.ac.uk/pdbsum/7o80 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7o80 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA at 07:34, 5 May 2021

OCA — Wed, 05 May 2021 07:34:47 GMT

←Older revision		Revision as of 07:34, 5 May 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7o80 is ON HOLD	+	The entry 7o80 is ON HOLD until sometime in the future

	Authors:		Authors:

OCA: Protected "7o80" [edit=sysop:move=sysop]

OCA — Wed, 21 Apr 2021 06:42:42 GMT

Protected "7o80" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:42, 21 April 2021

OCA: New page: '''Unreleased structure''' The entry 7o80 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 21 Apr 2021 06:42:40 GMT

New page: '''Unreleased structure''' The entry 7o80 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7o80 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

7o80 - Revision history

OCA at 11:02, 15 November 2023

OCA at 14:37, 2 June 2021

OCA at 07:34, 5 May 2021

OCA: Protected "7o80" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 7o80 is ON HOLD Authors: Description: Category: Unreleased Structures