5svd - Revision history

OCA at 14:18, 6 March 2024

OCA — Wed, 06 Mar 2024 14:18:18 GMT

←Older revision		Revision as of 14:18, 6 March 2024
Line 3:		Line 3:
	<StructureSection load='5svd' size='340' side='right'caption='[[5svd]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='5svd' size='340' side='right'caption='[[5svd]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5svd]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Baker's_yeast Baker's yeast~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5SVD OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5SVD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5svd]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5SVD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5SVD FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~NOP9~~, ~~YJL010C, J1357 (~~[~~http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=559292 Baker's yeast])~~</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]] 2.1Å</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=5svd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5svd OCA], [~~http~~://pdbe.org/5svd PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5svd RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5svd PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5svd 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=5svd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5svd OCA], [https://pdbe.org/5svd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5svd RCSB], [https://www.ebi.ac.uk/pdbsum/5svd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5svd ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/NOP9_YEAST NOP9_YEAST]] RNA-binding nucleolar protein required for pre-rRNA processing. Component of the 90S pre-ribosome involved in production of 18S rRNA and assembly of small ribosomal subunit. Component of the pre-40S ribosome required for release from the nucleolus.<ref>PMID:16544271</ref> <ref>PMID:17956976</ref>	+	[https://www.uniprot.org/uniprot/NOP9_YEAST NOP9_YEAST] RNA-binding nucleolar protein required for pre-rRNA processing. Component of the 90S pre-ribosome involved in production of 18S rRNA and assembly of small ribosomal subunit. Component of the pre-40S ribosome required for release from the nucleolus.<ref>PMID:16544271</ref> <ref>PMID:17956976</ref>
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	Numerous factors direct eukaryotic ribosome biogenesis, and defects in a single ribosome assembly factor may be lethal or produce tissue-specific human ribosomopathies. Pre-ribosomal RNAs (pre-rRNAs) must be processed stepwise and at the correct subcellular locations to produce the mature rRNAs. Nop9 is a conserved small ribosomal subunit biogenesis factor, essential in yeast. Here we report a 2.1-A crystal structure of Nop9 and a small-angle X-ray-scattering model of a Nop9:RNA complex that reveals a 'C'-shaped fold formed from 11 Pumilio repeats. We show that Nop9 recognizes sequence and structural features of the 20S pre-rRNA near the cleavage site of the nuclease, Nob1. We further demonstrate that Nop9 inhibits Nob1 cleavage, the final processing step to produce mature small ribosomal subunit 18S rRNA. Together, our results suggest that Nop9 is critical for timely cleavage of the 20S pre-rRNA. Moreover, the Nop9 structure exemplifies a new class of Pumilio repeat proteins.	+
-		+
-	Nop9 is a PUF-like protein that prevents premature cleavage to correctly process pre-18S rRNA.,Zhang J, McCann KL, Qiu C, Gonzalez LE, Baserga SJ, Hall TM Nat Commun. 2016 Oct 11;7:13085. doi: 10.1038/ncomms13085. PMID:27725644<ref>PMID:27725644</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 5svd" style="background-color:#fffaf0;"></div~~>	+
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Baker's yeast]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Hall, T~~]]	+	[[Category: Saccharomyces cerevisiae S288C]]
-	[[Category: ~~Qiu, C~~]]	+	[[Category: Hall T]]
-	[[Category: ~~Zhang, J~~]]	+	[[Category: Qiu C]]
-	[[Category: ~~Its1 ribosome biogenesis]]~~	+	[[Category: Zhang J]]
-	~~[[Category: Nop9]]~~	+
-	~~[[Category: Puf-like protein]]~~	+
-	~~[[Category: Rna binding protein]]~~	+
-	~~[[Category: Rna-binding protein~~]]	+

OCA at 08:57, 18 December 2019

OCA — Wed, 18 Dec 2019 08:57:13 GMT

←Older revision		Revision as of 08:57, 18 December 2019
Line 1:		Line 1:

	==Nop9, a new PUF-like protein, prevents premature pre-rRNA cleavage to correctly process mature 18S rRNA==		==Nop9, a new PUF-like protein, prevents premature pre-rRNA cleavage to correctly process mature 18S rRNA==
-	<StructureSection load='5svd' size='340' side='right' caption='[[5svd]], [[Resolution\|resolution]] 2.10Å' scene=''>	+	<StructureSection load='5svd' size='340' side='right'caption='[[5svd]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5svd]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5SVD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5SVD FirstGlance]. <br>		<table><tr><td colspan='2'>[[5svd]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5SVD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5SVD FirstGlance]. <br>
Line 23:		Line 23:
	</StructureSection>		</StructureSection>
	[[Category: Baker's yeast]]		[[Category: Baker's yeast]]
		+	[[Category: Large Structures]]
	[[Category: Hall, T]]		[[Category: Hall, T]]
	[[Category: Qiu, C]]		[[Category: Qiu, C]]

OCA at 18:50, 15 November 2017

OCA — Wed, 15 Nov 2017 18:50:04 GMT

←Older revision		Revision as of 18:50, 15 November 2017
Line 3:		Line 3:
	<StructureSection load='5svd' size='340' side='right' caption='[[5svd]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='5svd' size='340' side='right' caption='[[5svd]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5svd]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5SVD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5SVD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5svd]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5SVD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5SVD FirstGlance]. <br>
-	</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=5svd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5svd OCA], [http://pdbe.org/5svd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5svd RCSB], [http://www.ebi.ac.uk/pdbsum/5svd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5svd ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NOP9, YJL010C, J1357 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])</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=5svd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5svd OCA], [http://pdbe.org/5svd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5svd RCSB], [http://www.ebi.ac.uk/pdbsum/5svd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5svd ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 21:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Baker's yeast]]
	[[Category: Hall, T]]		[[Category: Hall, T]]
	[[Category: Qiu, C]]		[[Category: Qiu, C]]

OCA at 18:33, 26 October 2016

OCA — Wed, 26 Oct 2016 18:33:04 GMT

←Older revision		Revision as of 18:33, 26 October 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5svd is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Nop9, a new PUF-like protein, prevents premature pre-rRNA cleavage to correctly process mature 18S rRNA==
		+	<StructureSection load='5svd' size='340' side='right' caption='[[5svd]], [[Resolution\|resolution]] 2.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5svd]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5SVD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5SVD FirstGlance]. <br>
		+	</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=5svd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5svd OCA], [http://pdbe.org/5svd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5svd RCSB], [http://www.ebi.ac.uk/pdbsum/5svd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5svd ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/NOP9_YEAST NOP9_YEAST]] RNA-binding nucleolar protein required for pre-rRNA processing. Component of the 90S pre-ribosome involved in production of 18S rRNA and assembly of small ribosomal subunit. Component of the pre-40S ribosome required for release from the nucleolus.<ref>PMID:16544271</ref> <ref>PMID:17956976</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Numerous factors direct eukaryotic ribosome biogenesis, and defects in a single ribosome assembly factor may be lethal or produce tissue-specific human ribosomopathies. Pre-ribosomal RNAs (pre-rRNAs) must be processed stepwise and at the correct subcellular locations to produce the mature rRNAs. Nop9 is a conserved small ribosomal subunit biogenesis factor, essential in yeast. Here we report a 2.1-A crystal structure of Nop9 and a small-angle X-ray-scattering model of a Nop9:RNA complex that reveals a 'C'-shaped fold formed from 11 Pumilio repeats. We show that Nop9 recognizes sequence and structural features of the 20S pre-rRNA near the cleavage site of the nuclease, Nob1. We further demonstrate that Nop9 inhibits Nob1 cleavage, the final processing step to produce mature small ribosomal subunit 18S rRNA. Together, our results suggest that Nop9 is critical for timely cleavage of the 20S pre-rRNA. Moreover, the Nop9 structure exemplifies a new class of Pumilio repeat proteins.

-	~~Authors: Zhang~~, J., ~~Qiu~~, C., ~~Hall~~, T.	+	Nop9 is a PUF-like protein that prevents premature cleavage to correctly process pre-18S rRNA.,Zhang J, McCann KL, Qiu C, Gonzalez LE, Baserga SJ, Hall TM Nat Commun. 2016 Oct 11;7:13085. doi: 10.1038/ncomms13085. PMID:27725644<ref>PMID:27725644</ref>

-	~~Description: Nop9~~, a ~~new PUF~~-~~like protein, prevents premature pre~~-~~rRNA cleavage to correctly process mature 18S rRNA~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	~~[[Category: Zhang, J]]~~	+	<div class="pdbe-citations 5svd" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Hall, T]]		[[Category: Hall, T]]
	[[Category: Qiu, C]]		[[Category: Qiu, C]]
		+	[[Category: Zhang, J]]
		+	[[Category: Its1 ribosome biogenesis]]
		+	[[Category: Nop9]]
		+	[[Category: Puf-like protein]]
		+	[[Category: Rna binding protein]]
		+	[[Category: Rna-binding protein]]

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

OCA — Fri, 09 Sep 2016 15:19:03 GMT

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

←Older revision

Revision as of 15:19, 9 September 2016

OCA: New page: '''Unreleased structure''' The entry 5svd is ON HOLD until Paper Publication Authors: Zhang, J., Qiu, C., Hall, T. Description: Nop9, a new PUF-like protein, prevents premature pre-rRN...

OCA — Fri, 09 Sep 2016 15:19:02 GMT

New page: '''Unreleased structure''' The entry 5svd is ON HOLD until Paper Publication Authors: Zhang, J., Qiu, C., Hall, T. Description: Nop9, a new PUF-like protein, prevents premature pre-rRN...

New page

'''Unreleased structure'''

The entry 5svd is ON HOLD until Paper Publication

Authors: Zhang, J., Qiu, C., Hall, T.

Description: Nop9, a new PUF-like protein, prevents premature pre-rRNA cleavage to correctly process mature 18S rRNA
[[Category: Unreleased Structures]]
[[Category: Zhang, J]]
[[Category: Hall, T]]
[[Category: Qiu, C]]