5kla - Revision history

OCA at 10:03, 27 September 2023

OCA — Wed, 27 Sep 2023 10:03:05 GMT

←Older revision		Revision as of 10:03, 27 September 2023
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	<StructureSection load='5kla' size='340' side='right'caption='[[5kla]], [[Resolution\|resolution]] 1.14Å' scene=''>		<StructureSection load='5kla' size='340' side='right'caption='[[5kla]], [[Resolution\|resolution]] 1.14Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kla]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Drome Drome~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KLA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5KLA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kla]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KLA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5KLA FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>~~, ~~<scene name='pdbligand=EDO:~~1~~,2-ETHANEDIOL'>EDO</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]] 1.14Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[5kl1\|5kl1]], [[5kl8\|5kl8]]~~<~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
-	<~~tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">pum, CG9755 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7227 DROME])~~</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=5kla FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kla OCA], [https://pdbe.org/5kla PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5kla RCSB], [https://www.ebi.ac.uk/pdbsum/5kla PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5kla ProSAT]</span></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=5kla FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kla OCA], [~~http~~://pdbe.org/5kla PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5kla RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5kla PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5kla ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/PUM_DROME PUM_DROME]] Sequence-specific RNA-binding protein that regulates translation and mRNA stability by binding to the Nanos Response Element (NRE), a 16 bp sequence in the hb mRNA 3'-UTR and prevents its translation. Required for abdominal development and to support proliferation and self-renewal of germ cells. Pum is the only gene required for nos activity that is not also required for posterior localization of germline determinants. Pum is required during embryogenesis when nos activity apparently moves anteriorly from the posterior pole.<ref>PMID:1459455</ref> <ref>PMID:1576962</ref> <ref>PMID:9660969</ref>	+	[https://www.uniprot.org/uniprot/PUM_DROME PUM_DROME] Sequence-specific RNA-binding protein that regulates translation and mRNA stability by binding to the Nanos Response Element (NRE), a 16 bp sequence in the hb mRNA 3'-UTR and prevents its translation. Required for abdominal development and to support proliferation and self-renewal of germ cells. Pum is the only gene required for nos activity that is not also required for posterior localization of germline determinants. Pum is required during embryogenesis when nos activity apparently moves anteriorly from the posterior pole.<ref>PMID:1459455</ref> <ref>PMID:1576962</ref> <ref>PMID:9660969</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Drome~~]]	+	[[Category: Drosophila melanogaster]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Hall~~, T M.T~~]]	+	[[Category: Hall TMT]]
-	[[Category: Qiu, C]]	+	[[Category: Qiu C]]
-	~~[[Category: Rna-binding protein]]~~	+
-	~~[[Category: Rna-binding protein-rna complex~~]]	+

OCA at 15:27, 8 July 2020

OCA — Wed, 08 Jul 2020 15:27:56 GMT

←Older revision		Revision as of 15:27, 8 July 2020
Line 1:		Line 1:

	==Crystal structure of the drosophila Pumilio RNA-binding domain in complex with hunchback RNA==		==Crystal structure of the drosophila Pumilio RNA-binding domain in complex with hunchback RNA==
-	<StructureSection load='5kla' size='340' side='right' caption='[[5kla]], [[Resolution\|resolution]] 1.14Å' scene=''>	+	<StructureSection load='5kla' size='340' side='right'caption='[[5kla]], [[Resolution\|resolution]] 1.14Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kla]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KLA OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5KLA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kla]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Drome Drome]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KLA OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5KLA FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kl1\|5kl1]], [[5kl8\|5kl8]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kl1\|5kl1]], [[5kl8\|5kl8]]</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=5kla FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kla OCA], [http://pdbe.org/5kla PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kla RCSB], [http://www.ebi.ac.uk/pdbsum/5kla PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kla ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pum, CG9755 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7227 DROME])</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=5kla FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kla OCA], [http://pdbe.org/5kla PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kla RCSB], [http://www.ebi.ac.uk/pdbsum/5kla PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kla ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Drome]]
		+	[[Category: Large Structures]]
	[[Category: Hall, T M.T]]		[[Category: Hall, T M.T]]
	[[Category: Qiu, C]]		[[Category: Qiu, C]]
	[[Category: Rna-binding protein]]		[[Category: Rna-binding protein]]
	[[Category: Rna-binding protein-rna complex]]		[[Category: Rna-binding protein-rna complex]]

OCA at 05:01, 9 September 2016

OCA — Fri, 09 Sep 2016 05:01:45 GMT

←Older revision		Revision as of 05:01, 9 September 2016
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-	'''Unreleased structure'''

-	~~The entry~~ 5kla is ~~ON HOLD~~ ~~until Jun 23 2018~~	+	==Crystal structure of the drosophila Pumilio RNA-binding domain in complex with hunchback RNA==
		+	<StructureSection load='5kla' size='340' side='right' caption='[[5kla]], [[Resolution\|resolution]] 1.14Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5kla]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KLA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KLA FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kl1\|5kl1]], [[5kl8\|5kl8]]</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=5kla FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kla OCA], [http://pdbe.org/5kla PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kla RCSB], [http://www.ebi.ac.uk/pdbsum/5kla PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kla ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PUM_DROME PUM_DROME]] Sequence-specific RNA-binding protein that regulates translation and mRNA stability by binding to the Nanos Response Element (NRE), a 16 bp sequence in the hb mRNA 3'-UTR and prevents its translation. Required for abdominal development and to support proliferation and self-renewal of germ cells. Pum is the only gene required for nos activity that is not also required for posterior localization of germline determinants. Pum is required during embryogenesis when nos activity apparently moves anteriorly from the posterior pole.<ref>PMID:1459455</ref> <ref>PMID:1576962</ref> <ref>PMID:9660969</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Collaboration among the multitude of RNA-binding proteins (RBPs) is ubiquitous, yet our understanding of these key regulatory complexes has been limited to single RBPs. We investigated combinatorial translational regulation by Drosophila Pumilio (Pum) and Nanos (Nos), which control development, fertility, and neuronal functions. Our results show how the specificity of one RBP (Pum) is modulated by cooperative RNA recognition with a second RBP (Nos) to synergistically repress mRNAs. Crystal structures of Nos-Pum-RNA complexes reveal that Nos embraces Pum and RNA, contributes sequence-specific contacts, and increases Pum RNA-binding affinity. Nos shifts the recognition sequence and promotes repression complex formation on mRNAs that are not stably bound by Pum alone, explaining the preponderance of sub-optimal Pum sites regulated in vivo. Our results illuminate the molecular mechanism of a regulatory switch controlling crucial gene expression programs, and provide a framework for understanding how the partnering of RBPs evokes changes in binding specificity that underlie regulatory network dynamics.

-	~~Authors: Qiu~~, C., Hall, T.M.T.	+	Drosophila Nanos acts as a molecular clamp that modulates the RNA-binding and repression activities of Pumilio.,Weidmann CA, Qiu C, Arvola RM, Lou TF, Killingsworth J, Campbell ZT, Tanaka Hall TM, Goldstrohm AC Elife. 2016 Aug 2;5. pii: e17096. doi: 10.7554/eLife.17096. PMID:27482653<ref>PMID:27482653</ref>

-	~~Description: Crystal structure~~ of the ~~drosophila Pumilio RNA~~-~~binding domain in complex with hunchback RNA~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5kla" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Hall, T M.T]]
	[[Category: Qiu, C]]		[[Category: Qiu, C]]
-	[[Category: ~~Hall, T.M.T~~]]	+	[[Category: Rna-binding protein]]
		+	[[Category: Rna-binding protein-rna complex]]

OCA at 12:31, 26 July 2016

OCA — Tue, 26 Jul 2016 12:31:35 GMT

←Older revision		Revision as of 12:31, 26 July 2016
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5kla is ON HOLD	+	The entry 5kla is ON HOLD until Jun 23 2018

	Authors: Qiu, C., Hall, T.M.T.		Authors: Qiu, C., Hall, T.M.T.

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

OCA — Wed, 13 Jul 2016 00:30:49 GMT

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

←Older revision

Revision as of 00:30, 13 July 2016

OCA: New page: '''Unreleased structure''' The entry 5kla is ON HOLD Authors: Qiu, C., Hall, T.M.T. Description: Crystal structure of the drosophila Pumilio RNA-binding domain in complex with hunchbac...

OCA — Wed, 13 Jul 2016 00:30:47 GMT

New page: '''Unreleased structure''' The entry 5kla is ON HOLD Authors: Qiu, C., Hall, T.M.T. Description: Crystal structure of the drosophila Pumilio RNA-binding domain in complex with hunchbac...

New page

'''Unreleased structure'''

The entry 5kla is ON HOLD

Authors: Qiu, C., Hall, T.M.T.

Description: Crystal structure of the drosophila Pumilio RNA-binding domain in complex with hunchback RNA
[[Category: Unreleased Structures]]
[[Category: Qiu, C]]
[[Category: Hall, T.M.T]]