OCA at 11:40, 15 November 2023

OCA — Wed, 15 Nov 2023 11:40:18 GMT

←Older revision		Revision as of 11:40, 15 November 2023
Line 19:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 8idt" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 8idt" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Ribosome 3D structures\|Ribosome 3D structures]]
		+	*[[Ribosome biogenesis protein 3D structures\|Ribosome biogenesis protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 05:29, 9 August 2023

OCA — Wed, 09 Aug 2023 05:29:33 GMT

←Older revision		Revision as of 05:29, 9 August 2023
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 8idt is ~~ON HOLD until Paper~~ Publication	+	==human nuclear pre-60S ribosomal particle - State G==
		+	<StructureSection load='8idt' size='340' side='right'caption='[[8idt]], [[Resolution\|resolution]] 2.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[8idt]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8IDT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8IDT FirstGlance]. <br>
		+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 2.8Å</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=2MG:2N-METHYLGUANOSINE-5-MONOPHOSPHATE'>2MG</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=7MG:7N-METHYL-8-HYDROGUANOSINE-5-MONOPHOSPHATE'>7MG</scene>, <scene name='pdbligand=A2M:2-O-METHYLADENOSINE+5-(DIHYDROGEN+PHOSPHATE)'>A2M</scene>, <scene name='pdbligand=B8H:[(2~{R},3~{S},4~{R},5~{S})-5-[1-methyl-2,4-bis(oxidanylidene)pyrimidin-5-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl+dihydrogen+phosphate'>B8H</scene>, <scene name='pdbligand=B8K:7-acetyl,+guanosine-5-monophosphate'>B8K</scene>, <scene name='pdbligand=B8Q:3-methyl,+cytidine-5-monophosphate'>B8Q</scene>, <scene name='pdbligand=B8T:4-methyl,+cytidine-5-monophosphate'>B8T</scene>, <scene name='pdbligand=B8W:6-methyl,+guanosine-5-monophosphate'>B8W</scene>, <scene name='pdbligand=B9B:6-propyl,+guanosine-5-monophosphate'>B9B</scene>, <scene name='pdbligand=B9H:2-methyl,+3-propyl,+cytidine-5-monophosphate'>B9H</scene>, <scene name='pdbligand=BGH:[(2~{R},3~{R},4~{R},5~{R})-5-(2-azanyl-7-ethanoyl-6-oxidanylidene-1,8-dihydropurin-9-yl)-4-methoxy-3-oxidanyl-oxolan-2-yl]methyl+dihydrogen+phosphate'>BGH</scene>, <scene name='pdbligand=E6G:6-ethyl,+guanosine-5-monophosphate'>E6G</scene>, <scene name='pdbligand=E7G:7-ethyl,+guanosine-5-monophosphate'>E7G</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=I4U:4-isopropyl,+uridine-5-monophosphate'>I4U</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=M7A:7-methyl,+adenosine-5-monophosphate'>M7A</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MHG:2-methyl,+7-(3-methyl-pentane),+guanosine-5-monophosphate'>MHG</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=P4U:4-propyl,+uridine-5-monophosphate'>P4U</scene>, <scene name='pdbligand=P7G:7-propyl,+guanosine-5-monophosphate'>P7G</scene>, <scene name='pdbligand=UR3:3-METHYLURIDINE-5-MONOPHOSHATE'>UR3</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=8idt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8idt OCA], [https://pdbe.org/8idt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8idt RCSB], [https://www.ebi.ac.uk/pdbsum/8idt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8idt ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/IF6_HUMAN IF6_HUMAN] Binds to the 60S ribosomal subunit and prevents its association with the 40S ribosomal subunit to form the 80S initiation complex in the cytoplasm (PubMed:10085284, PubMed:14654845, PubMed:21536732, PubMed:32669547). Behaves as a stimulatory translation initiation factor downstream insulin/growth factors. Is also involved in ribosome biogenesis. Associates with pre-60S subunits in the nucleus and is involved in its nuclear export. Cytoplasmic release of TIF6 from 60S subunits and nuclear relocalization is promoted by a RACK1 (RACK1)-dependent protein kinase C activity (PubMed:10085284, PubMed:14654845, PubMed:21536732). In tissues responsive to insulin, controls fatty acid synthesis and glycolysis by exerting translational control of adipogenic transcription factors such as CEBPB, CEBPD and ATF4 that have G/C rich or uORF in their 5'UTR. Required for ROS-dependent megakaryocyte maturation and platelets formation, controls the expression of mitochondrial respiratory chain genes involved in reactive oxygen species (ROS) synthesis (By similarity). Involved in miRNA-mediated gene silencing by the RNA-induced silencing complex (RISC). Required for both miRNA-mediated translational repression and miRNA-mediated cleavage of complementary mRNAs by RISC (PubMed:17507929). Modulates cell cycle progression and global translation of pre-B cells, its activation seems to be rate-limiting in tumorigenesis and tumor growth (By similarity).[HAMAP-Rule:MF_03132]<ref>PMID:10085284</ref> <ref>PMID:14654845</ref> <ref>PMID:17507929</ref> <ref>PMID:21536732</ref> <ref>PMID:32669547</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Eukaryotic ribosome assembly is a highly orchestrated process that involves over two hundred protein factors. After early assembly events on nascent rRNA in the nucleolus, pre-60S particles undergo continuous maturation steps in the nucleoplasm, and prepare for nuclear export. Here, we report eleven cryo-EM structures of the nuclear pre-60S particles isolated from human cells through epitope-tagged GNL2, at resolutions of 2.8-4.3 A. These high-resolution snapshots provide fine details for several major structural remodeling events at a virtual temporal resolution. Two new human nuclear factors, L10K and C11orf98, were also identified. Comparative structural analyses reveal that many assembly factors act as successive place holders to control the timing of factor association/dissociation events. They display multi-phasic binding properties for different domains and generate complex binding inter-dependencies as a means to guide the rRNA maturation process towards its mature conformation. Overall, our data reveal that nuclear assembly of human pre-60S particles is generally hierarchical with short branch pathways, and a few factors display specific roles as rRNA chaperones by confining rRNA helices locally to facilitate their folding, such as the C-terminal domain of SDAD1.

-	~~Authors~~:	+	Visualizing the nucleoplasmic maturation of human pre-60S ribosomal particles.,Zhang Y, Liang X, Luo S, Chen Y, Li Y, Ma C, Li N, Gao N Cell Res. 2023 Jul 25. doi: 10.1038/s41422-023-00853-9. PMID:37491604<ref>PMID:37491604</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 8idt" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Homo sapiens]]
		+	[[Category: Large Structures]]
		+	[[Category: Gao N]]
		+	[[Category: Zhang Y]]

OCA at 14:54, 26 April 2023

OCA — Wed, 26 Apr 2023 14:54:50 GMT

←Older revision		Revision as of 14:54, 26 April 2023
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 8idt is ON HOLD	+	The entry 8idt is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "8idt" [edit=sysop:move=sysop]

OCA — Wed, 22 Feb 2023 10:39:34 GMT

Protected "8idt" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:39, 22 February 2023

OCA: New page: '''Unreleased structure''' The entry 8idt is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 22 Feb 2023 10:39:32 GMT

New page: '''Unreleased structure''' The entry 8idt is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 8idt is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

8idt - Revision history

OCA at 11:40, 15 November 2023

OCA at 05:29, 9 August 2023

OCA at 14:54, 26 April 2023

OCA: Protected "8idt" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 8idt is ON HOLD Authors: Description: Category: Unreleased Structures