4nsx - Revision history

OCA at 08:57, 20 March 2024

OCA — Wed, 20 Mar 2024 08:57:15 GMT

←Older revision		Revision as of 08:57, 20 March 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4nsx]] is a 1 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=4NSX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4NSX FirstGlance]. <br>		<table><tr><td colspan='2'>[[4nsx]] is a 1 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=4NSX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4NSX FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</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]] 2.1Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</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=4nsx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nsx OCA], [https://pdbe.org/4nsx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4nsx RCSB], [https://www.ebi.ac.uk/pdbsum/4nsx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4nsx 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=4nsx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nsx OCA], [https://pdbe.org/4nsx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4nsx RCSB], [https://www.ebi.ac.uk/pdbsum/4nsx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4nsx ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/UTP21_YEAST UTP21_YEAST] Involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly.<ref>PMID:15590835</ref>		[https://www.uniprot.org/uniprot/UTP21_YEAST UTP21_YEAST] Involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly.<ref>PMID:15590835</ref>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Assembly of the eukaryotic ribosome requires a large number of trans-acting proteins and small nucleolar RNAs that transiently associate with the precursor rRNA to facilitate its modification, processing and binding with ribosomal proteins. UTPB is a large evolutionarily conserved complex in the 90S small subunit processome that mediates early processing of 18S rRNA. UTPB consists of six proteins Utp1/Pwp1, Utp6, Utp12/Dip2, Utp13, Utp18 and Utp21 and has abundant WD domains. Here, we determined the crystal structure of the tandem WD domain of yeast Utp21 at 2.1 A resolution, revealing two open-clamshell-shaped beta-propellers. The bottom faces of both WD domains harbor several conserved patches that potentially function as molecular binding sites. We show that residues 100-190 of Utp18 bind to the tandem WD domain of Utp21. Structural mapping of previous crosslinking data shows that the WD domains of Utp18 and Utp1 are organized on two opposite sides of the Utp21 WD domains. This study reports the first structure of a UTPB component and provides insight into the structural organization of the UTPB complex.
-
-	Structure of Utp21 Tandem WD Domain Provides Insight into the Organization of the UTPB Complex Involved in Ribosome Synthesis.,Zhang C, Lin J, Liu W, Chen X, Chen R, Ye K PLoS One. 2014 Jan 21;9(1):e86540. doi: 10.1371/journal.pone.0086540. eCollection, 2014 Jan 21. PMID:24466140<ref>PMID:24466140</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 4nsx" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 08:38, 18 January 2023

OCA — Wed, 18 Jan 2023 08:38:18 GMT

←Older revision		Revision as of 08:38, 18 January 2023
Line 1:		Line 1:

	==Crystal Structure of the Utp21 tandem WD Domain==		==Crystal Structure of the Utp21 tandem WD Domain==
-	<StructureSection load='4nsx' size='340' side='right' caption='[[4nsx]], [[Resolution\|resolution]] 2.10Å' scene=''>	+	<StructureSection load='4nsx' size='340' side='right'caption='[[4nsx]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4nsx]] is a 1 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=4NSX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4NSX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4nsx]] is a 1 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=4NSX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4NSX FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">L8084.22, UTP21, YLR409C ([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'>[https://proteopedia.org/fgij/fg.htm?mol=4nsx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nsx OCA], [https://pdbe.org/4nsx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4nsx RCSB], [https://www.ebi.ac.uk/pdbsum/4nsx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4nsx ProSAT]</span></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=4nsx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nsx OCA], [~~http~~://pdbe.org/4nsx PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4nsx RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4nsx PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4nsx ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/UTP21_YEAST UTP21_YEAST]] Involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly.<ref>PMID:15590835</ref>	+	[https://www.uniprot.org/uniprot/UTP21_YEAST UTP21_YEAST] Involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly.<ref>PMID:15590835</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Baker's yeast~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Ye, K~~]]	+	[[Category: Saccharomyces cerevisiae S288C]]
-	[[Category: ~~Zhang, C~~]]	+	[[Category: Ye K]]
-	[[Category: ~~90s preribosome]]~~	+	[[Category: Zhang C]]
-	~~[[Category: Protein binding]]~~	+
-	~~[[Category: Ribosome biogenesis]]~~	+
-	~~[[Category: Small subunit processome]]~~	+
-	~~[[Category: Utpb complex~~]]	+

OCA at 18:39, 5 August 2016

OCA — Fri, 05 Aug 2016 18:39:59 GMT

←Older revision		Revision as of 18:39, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal Structure of the Utp21 tandem WD Domain==		==Crystal Structure of the Utp21 tandem WD Domain==
	<StructureSection load='4nsx' size='340' side='right' caption='[[4nsx]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='4nsx' size='340' side='right' caption='[[4nsx]], [[Resolution\|resolution]] 2.10Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">L8084.22, UTP21, YLR409C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">L8084.22, UTP21, YLR409C ([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=4nsx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nsx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4nsx RCSB], [http://www.ebi.ac.uk/pdbsum/4nsx PDBsum]</span></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=4nsx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nsx OCA], [http://pdbe.org/4nsx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4nsx RCSB], [http://www.ebi.ac.uk/pdbsum/4nsx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4nsx ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 18:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4nsx" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 21:02, 25 December 2014

OCA — Thu, 25 Dec 2014 21:02:43 GMT

←Older revision		Revision as of 21:02, 25 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4nsx\| PDB=4nsx \| SCENE= }}~~	+	==Crystal Structure of the Utp21 tandem WD Domain==
-	===Crystal Structure of the Utp21 tandem WD Domain===	+	<StructureSection load='4nsx' size='340' side='right' caption='[[4nsx]], [[Resolution\|resolution]] 2.10Å' scene=''>
-	~~{{ABSTRACT_PUBMED_24466140}}~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4nsx]] is a 1 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=4NSX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4NSX FirstGlance]. <br>
-	==Function==	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">L8084.22, UTP21, YLR409C ([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=4nsx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nsx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4nsx RCSB], [http://www.ebi.ac.uk/pdbsum/4nsx PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
	[[http://www.uniprot.org/uniprot/UTP21_YEAST UTP21_YEAST]] Involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly.<ref>PMID:15590835</ref>		[[http://www.uniprot.org/uniprot/UTP21_YEAST UTP21_YEAST]] Involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly.<ref>PMID:15590835</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Assembly of the eukaryotic ribosome requires a large number of trans-acting proteins and small nucleolar RNAs that transiently associate with the precursor rRNA to facilitate its modification, processing and binding with ribosomal proteins. UTPB is a large evolutionarily conserved complex in the 90S small subunit processome that mediates early processing of 18S rRNA. UTPB consists of six proteins Utp1/Pwp1, Utp6, Utp12/Dip2, Utp13, Utp18 and Utp21 and has abundant WD domains. Here, we determined the crystal structure of the tandem WD domain of yeast Utp21 at 2.1 A resolution, revealing two open-clamshell-shaped beta-propellers. The bottom faces of both WD domains harbor several conserved patches that potentially function as molecular binding sites. We show that residues 100-190 of Utp18 bind to the tandem WD domain of Utp21. Structural mapping of previous crosslinking data shows that the WD domains of Utp18 and Utp1 are organized on two opposite sides of the Utp21 WD domains. This study reports the first structure of a UTPB component and provides insight into the structural organization of the UTPB complex.

-	~~==About this~~ Structure==	+	Structure of Utp21 Tandem WD Domain Provides Insight into the Organization of the UTPB Complex Involved in Ribosome Synthesis.,Zhang C, Lin J, Liu W, Chen X, Chen R, Ye K PLoS One. 2014 Jan 21;9(1):e86540. doi: 10.1371/journal.pone.0086540. eCollection, 2014 Jan 21. PMID:24466140<ref>PMID:24466140</ref>
-	~~[[4nsx]] is a~~ 1 ~~chain structure~~. ~~Full crystallographic information is available from [http~~:/~~/oca~~.~~weizmann~~.ac.~~il/oca-bin/ocashort?id=4NSX OCA]~~.	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:024466140</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
-	[[Category: Ye, K.]]	+	== References ==
-	[[Category: Zhang, C.]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Baker's yeast]]
		+	[[Category: Ye, K]]
		+	[[Category: Zhang, C]]
	[[Category: 90s preribosome]]		[[Category: 90s preribosome]]
	[[Category: Protein binding]]		[[Category: Protein binding]]

OCA at 17:24, 19 February 2014

OCA — Wed, 19 Feb 2014 17:24:47 GMT

←Older revision		Revision as of 17:24, 19 February 2014
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{STRUCTURE_4nsx\| PDB=4nsx \| SCENE= }}
		+	===Crystal Structure of the Utp21 tandem WD Domain===
		+	{{ABSTRACT_PUBMED_24466140}}

-	~~The entry 4nsx is ON HOLD~~ ~~until Paper Publication~~	+	==Function==
		+	[[http://www.uniprot.org/uniprot/UTP21_YEAST UTP21_YEAST]] Involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly.<ref>PMID:15590835</ref>

-	~~Authors~~: ~~Zhang, C~~.~~, Ye, K~~.	+	==About this Structure==
		+	[[4nsx]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NSX OCA].

-	~~Description~~: ~~Crystal Structure of the Utp21 tandem WD Domain~~	+	==Reference==
		+	<ref group="xtra">PMID:024466140</ref><references group="xtra"/><references/>
		+	[[Category: Ye, K.]]
		+	[[Category: Zhang, C.]]
		+	[[Category: 90s preribosome]]
		+	[[Category: Protein binding]]
		+	[[Category: Ribosome biogenesis]]
		+	[[Category: Small subunit processome]]
		+	[[Category: Utpb complex]]

OCA at 09:21, 18 December 2013

OCA — Wed, 18 Dec 2013 09:21:49 GMT

←Older revision		Revision as of 09:21, 18 December 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4nsx is ON HOLD	+	The entry 4nsx is ON HOLD until Paper Publication

	Authors: Zhang, C., Ye, K.		Authors: Zhang, C., Ye, K.

	Description: Crystal Structure of the Utp21 tandem WD Domain		Description: Crystal Structure of the Utp21 tandem WD Domain

OCA: Protected "4nsx" [edit=sysop:move=sysop]

OCA — Wed, 11 Dec 2013 13:07:08 GMT

Protected "4nsx" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:07, 11 December 2013

OCA: New page: '''Unreleased structure''' The entry 4nsx is ON HOLD Authors: Zhang, C., Ye, K. Description: Crystal Structure of the Utp21 tandem WD Domain

OCA — Wed, 11 Dec 2013 13:07:07 GMT

New page: '''Unreleased structure''' The entry 4nsx is ON HOLD Authors: Zhang, C., Ye, K. Description: Crystal Structure of the Utp21 tandem WD Domain

New page

'''Unreleased structure'''

The entry 4nsx is ON HOLD

Authors: Zhang, C., Ye, K.

Description: Crystal Structure of the Utp21 tandem WD Domain