OCA at 12:42, 24 January 2024

OCA — Wed, 24 Jan 2024 12:42:47 GMT

←Older revision		Revision as of 12:42, 24 January 2024
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-	====	+	==ZC3H12B-ribonuclease domain bound to RNA==
-	<StructureSection load='6sjd' size='340' side='right'caption='[[6sjd]]' scene=''>	+	<StructureSection load='6sjd' size='340' side='right'caption='[[6sjd]], [[Resolution\|resolution]] 3.29Å' 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 [~~http~~://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6sjd]] is a 3 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=6SJD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6SJD FirstGlance]. <br>
-	</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=6sjd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6sjd OCA], [~~http~~://pdbe.org/6sjd PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6sjd RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6sjd PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6sjd ProSAT]</span></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]] 3.29Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CAC:CACODYLATE+ION'>CAC</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=6sjd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6sjd OCA], [https://pdbe.org/6sjd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6sjd RCSB], [https://www.ebi.ac.uk/pdbsum/6sjd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6sjd ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/ZC12B_HUMAN ZC12B_HUMAN] May function as RNase and regulate the levels of target RNA species.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	RNA-binding proteins (RBPs) regulate RNA metabolism at multiple levels by affecting splicing of nascent transcripts, RNA folding, base modification, transport, localization, translation, and stability. Despite their central role in RNA function, the RNA-binding specificities of most RBPs remain unknown or incompletely defined. To address this, we have assembled a genome-scale collection of RBPs and their RNA-binding domains (RBDs) and assessed their specificities using high-throughput RNA-SELEX (HTR-SELEX). Approximately 70% of RBPs for which we obtained a motif bound to short linear sequences, whereas approximately 30% preferred structured motifs folding into stem-loops. We also found that many RBPs can bind to multiple distinctly different motifs. Analysis of the matches of the motifs in human genomic sequences suggested novel roles for many RBPs. We found that three cytoplasmic proteins-ZC3H12A, ZC3H12B, and ZC3H12C-bound to motifs resembling the splice donor sequence, suggesting that these proteins are involved in degradation of cytoplasmic viral and/or unspliced transcripts. Structural analysis revealed that the RNA motif was not bound by the conventional C3H1 RNA-binding domain of ZC3H12B. Instead, the RNA motif was bound by the ZC3H12B's PilT N terminus (PIN) RNase domain, revealing a potential mechanism by which unconventional RBDs containing active sites or molecule-binding pockets could interact with short, structured RNA molecules. Our collection containing 145 high-resolution binding specificity models for 86 RBPs is the largest systematic resource for the analysis of human RBPs and will greatly facilitate future analysis of the various biological roles of this important class of proteins.
		+
		+	Binding specificities of human RNA-binding proteins toward structured and linear RNA sequences.,Jolma A, Zhang J, Mondragon E, Morgunova E, Kivioja T, Laverty KU, Yin Y, Zhu F, Bourenkov G, Morris Q, Hughes TR, Maher LJ 3rd, Taipale J Genome Res. 2020 Jul;30(7):962-973. doi: 10.1101/gr.258848.119. Epub 2020 Jul 23. PMID:32703884<ref>PMID:32703884</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6sjd" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Bourenkov G]]
		+	[[Category: Morgunova E]]
		+	[[Category: Taipale J]]

OCA at 10:48, 22 July 2020

OCA — Wed, 22 Jul 2020 10:48:37 GMT

←Older revision		Revision as of 10:48, 22 July 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6sjd ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='6sjd' size='340' side='right'caption='[[6sjd]]' scene=''>
-	~~Authors~~: ~~Morgunova, E~~.~~, Bourenkov, G~~.~~, Taipale, J~~.	+	== 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 [http://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	~~Description: ZC3H12B~~-~~ribonuclease domain bound to RNA~~	+	</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=6sjd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6sjd OCA], [http://pdbe.org/6sjd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6sjd RCSB], [http://www.ebi.ac.uk/pdbsum/6sjd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6sjd ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[~~Category~~: ~~Taipale~~, J]]	+	__TOC__
-	[[Category: ~~Morgunova, E~~]]	+	</StructureSection>
-	[[Category: ~~Bourenkov, G~~]]	+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA: Protected "6sjd" [edit=sysop:move=sysop]

OCA — Wed, 21 Aug 2019 04:19:22 GMT

Protected "6sjd" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:19, 21 August 2019

OCA: New page: '''Unreleased structure''' The entry 6sjd is ON HOLD until Paper Publication Authors: Morgunova, E., Bourenkov, G., Taipale, J. Description: ZC3H12B-ribonuclease domain bound to RNA [[...

OCA — Wed, 21 Aug 2019 04:19:21 GMT

New page: '''Unreleased structure''' The entry 6sjd is ON HOLD until Paper Publication Authors: Morgunova, E., Bourenkov, G., Taipale, J. Description: ZC3H12B-ribonuclease domain bound to RNA [[...

New page

'''Unreleased structure'''

The entry 6sjd is ON HOLD until Paper Publication

Authors: Morgunova, E., Bourenkov, G., Taipale, J.

Description: ZC3H12B-ribonuclease domain bound to RNA
[[Category: Unreleased Structures]]
[[Category: Taipale, J]]
[[Category: Morgunova, E]]
[[Category: Bourenkov, G]]

6sjd - Revision history

OCA at 12:42, 24 January 2024

OCA at 10:48, 22 July 2020

OCA: Protected "6sjd" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 6sjd is ON HOLD until Paper Publication Authors: Morgunova, E., Bourenkov, G., Taipale, J. Description: ZC3H12B-ribonuclease domain bound to RNA [[...