4bwp - Revision history

OCA at 11:59, 20 December 2023

2023-12-20T11:59:30Z

← Older revision		Revision as of 11:59, 20 December 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4bwp]] 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=4BWP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4BWP FirstGlance]. <br>		<table><tr><td colspan='2'>[[4bwp]] 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=4BWP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4BWP FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AN2:AMP+PHOSPHORAMIDATE'>AN2</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]] 3.6Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AN2:AMP+PHOSPHORAMIDATE'>AN2</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=4bwp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4bwp OCA], [https://pdbe.org/4bwp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4bwp RCSB], [https://www.ebi.ac.uk/pdbsum/4bwp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4bwp 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=4bwp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4bwp OCA], [https://pdbe.org/4bwp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4bwp RCSB], [https://www.ebi.ac.uk/pdbsum/4bwp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4bwp ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/PAN3_DROME PAN3_DROME]] Regulatory subunit of the poly(A)-nuclease (PAN) deadenylation complex, one of two cytoplasmic mRNA deadenylases involved in general and miRNA-mediated mRNA turnover. PAN specifically shortens poly(A) tails of RNA and the activity is stimulated by poly(A)-binding protein (PABP). PAN deadenylation is followed by rapid degradation of the shortened mRNA tails by the CCR4-NOT complex. Deadenylated mRNAs are then degraded by two alternative mechanisms, namely exosome-mediated 3'-5' exonucleolytic degradation, or deadenlyation-dependent mRNA decaping and subsequent 5'-3' exonucleolytic degradation by XRN1. PAN3 acts as a positive regulator for PAN activity, recruiting the catalytic subunit PAN2 to mRNA via its interaction with RNA and PABP, and to miRNA targets via its interaction with GW182 family proteins.[HAMAP-Rule:MF_03181]<ref>PMID:23172285</ref>		[https://www.uniprot.org/uniprot/PAN3_DROME PAN3_DROME] Regulatory subunit of the poly(A)-nuclease (PAN) deadenylation complex, one of two cytoplasmic mRNA deadenylases involved in general and miRNA-mediated mRNA turnover. PAN specifically shortens poly(A) tails of RNA and the activity is stimulated by poly(A)-binding protein (PABP). PAN deadenylation is followed by rapid degradation of the shortened mRNA tails by the CCR4-NOT complex. Deadenylated mRNAs are then degraded by two alternative mechanisms, namely exosome-mediated 3'-5' exonucleolytic degradation, or deadenlyation-dependent mRNA decaping and subsequent 5'-3' exonucleolytic degradation by XRN1. PAN3 acts as a positive regulator for PAN activity, recruiting the catalytic subunit PAN2 to mRNA via its interaction with RNA and PABP, and to miRNA targets via its interaction with GW182 family proteins.[HAMAP-Rule:MF_03181]<ref>PMID:23172285</ref>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			The PAN2-PAN3 deadenylase complex functions in general and miRNA-mediated mRNA degradation and is specifically recruited to miRNA targets by GW182/TNRC6 proteins. We describe the PAN3 adaptor protein crystal structure that, unexpectedly, forms intertwined and asymmetric homodimers. Dimerization is mediated by a coiled coil that links an N-terminal pseudokinase to a C-terminal knob domain. The PAN3 pseudokinase binds ATP, and this function is required for mRNA degradation in vivo. We further identified conserved surfaces required for mRNA degradation, including the binding surface for the PAN2 deadenylase on the knob domain. The most remarkable structural feature is the presence of a tryptophan-binding pocket at the dimer interface, which mediates binding to TNRC6C in human cells. Together, our data reveal the structural basis for the interaction of PAN3 with PAN2 and the recruitment of the PAN2-PAN3 complex to miRNA targets by TNRC6 proteins.

			Structure of the PAN3 Pseudokinase Reveals the Basis for Interactions with the PAN2 Deadenylase and the GW182 Proteins.,Christie M, Boland A, Huntzinger E, Weichenrieder O, Izaurralde E Mol Cell. 2013 Aug 8;51(3):360-73. doi: 10.1016/j.molcel.2013.07.011. PMID:23932717<ref>PMID:23932717</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 4bwp" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==

OCA at 17:13, 7 September 2022

2022-09-07T17:13:40Z

← Older revision		Revision as of 17:13, 7 September 2022
Line 3:		Line 3:
	<StructureSection load='4bwp' size='340' side='right'caption='[[4bwp]], [[Resolution\|resolution]] 3.60Å' scene=''>		<StructureSection load='4bwp' size='340' side='right'caption='[[4bwp]], [[Resolution\|resolution]] 3.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4bwp]] 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=4BWP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4BWP FirstGlance]. <br>		<table><tr><td colspan='2'>[[4bwp]] 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=4BWP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4BWP FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AN2:AMP+PHOSPHORAMIDATE'>AN2</scene>~~</td></tr>~~		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AN2:AMP+PHOSPHORAMIDATE'>AN2</scene></td></tr>
	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4bwk\|4bwk]], [[4bwx\|4bwx]]~~</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=4bwp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4bwp OCA], [https://pdbe.org/4bwp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4bwp RCSB], [https://www.ebi.ac.uk/pdbsum/4bwp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4bwp 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=4bwp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4bwp OCA], [~~http~~://pdbe.org/4bwp PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4bwp RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4bwp PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4bwp ProSAT]</span></td></tr>
	</table>		</table>
	~~<div style="background-color:#fffaf0;">~~		== Function ==
	== ~~Publication Abstract from PubMed~~ ==		[[https://www.uniprot.org/uniprot/PAN3_DROME PAN3_DROME]] Regulatory subunit of the poly(A)-nuclease (PAN) deadenylation complex, one of two cytoplasmic mRNA deadenylases involved in general and miRNA-mediated mRNA turnover. PAN specifically shortens poly(A) tails of RNA and the activity is stimulated by poly(A)-binding protein (PABP). PAN deadenylation is followed by rapid degradation of the shortened mRNA tails by the CCR4-NOT complex. Deadenylated mRNAs are then degraded by two alternative mechanisms, namely exosome-mediated 3'-5' exonucleolytic degradation, or deadenlyation-dependent mRNA decaping and subsequent 5'-3' exonucleolytic degradation by XRN1. PAN3 acts as a positive regulator for PAN activity, recruiting the catalytic subunit PAN2 to mRNA via its interaction with RNA and PABP, and to miRNA targets via its interaction with GW182 family proteins.[HAMAP-Rule:MF_03181]<ref>PMID:23172285</ref>
	~~The PAN2~~-~~PAN3 deadenylase~~ complex ~~functions~~ in general and miRNA-mediated mRNA ~~degradation~~ and is ~~specifically recruited to miRNA targets~~ by ~~GW182/TNRC6 proteins~~. ~~We describe~~ the ~~PAN3 adaptor protein crystal structure that, unexpectedly, forms intertwined and asymmetric homodimers~~. ~~Dimerization is mediated~~ by ~~a coiled coil that links an N~~-~~terminal pseudokinase to a C~~-~~terminal knob domain. The PAN3 pseudokinase binds ATP~~, and ~~this function is required for mRNA~~ degradation ~~in vivo~~. ~~We further identified conserved surfaces required~~ for ~~mRNA degradation~~, ~~including the binding surface for~~ the PAN2 ~~deadenylase on the knob domain. The most remarkable structural feature is the presence of a tryptophan-binding pocket at the dimer interface, which mediates binding~~ to ~~TNRC6C in human cells. Together, our data reveal the structural basis for the~~ interaction ~~of PAN3~~ with ~~PAN2~~ and ~~the recruitment of the PAN2-PAN3 complex~~ to miRNA targets ~~by TNRC6 proteins.~~

	~~Structure of the PAN3 Pseudokinase Reveals the Basis for Interactions~~ with ~~the PAN2 Deadenylase and the~~ GW182 ~~Proteins.,Christie M, Boland A, Huntzinger E, Weichenrieder O, Izaurralde E Mol Cell~~. ~~2013 Aug 8;51(3):360~~-~~73. doi~~: ~~10.1016/j.molcel.2013.07.011. PMID:23932717~~<ref>PMID:~~23932717~~</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 4bwp" style="background-color:#fffaf0;"></div~~>

	==See Also==		==See Also==
	*[[Ribonuclease\|Ribonuclease]]		*[[Ribonuclease 3D structures\|Ribonuclease 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Drome~~]]		[[Category: Drosophila melanogaster]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Boland, A]]		[[Category: Boland A]]
	[[Category: Christie, M]]		[[Category: Christie M]]
	[[Category: Huntzinger, E]]		[[Category: Huntzinger E]]
	[[Category: Izaurralde, E]]		[[Category: Izaurralde E]]
	[[Category: Weichenrieder, O]]		[[Category: Weichenrieder O]]
	~~[[Category: Deadenylase]]~~
	~~[[Category: Gene regulation]]~~
	~~[[Category: Mirna]]~~
	~~[[Category: Mrna decay]]~~
	~~[[Category: Pan2~~]]

OCA at 13:29, 13 March 2019

2019-03-13T13:29:22Z

← Older revision		Revision as of 13:29, 13 March 2019
Line 1:		Line 1:

	==Structure of Drosophila Melanogaster PAN3 pseudokinase==		==Structure of Drosophila Melanogaster PAN3 pseudokinase==
	<StructureSection load='4bwp' size='340' side='right' caption='[[4bwp]], [[Resolution\|resolution]] 3.60Å' scene=''>		<StructureSection load='4bwp' size='340' side='right'caption='[[4bwp]], [[Resolution\|resolution]] 3.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4bwp]] 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=4BWP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4BWP FirstGlance]. <br>		<table><tr><td colspan='2'>[[4bwp]] 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=4BWP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4BWP FirstGlance]. <br>
Line 25:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: Drome]]		[[Category: Drome]]
			[[Category: Large Structures]]
	[[Category: Boland, A]]		[[Category: Boland, A]]
	[[Category: Christie, M]]		[[Category: Christie, M]]

OCA at 11:28, 4 August 2016

2016-08-04T11:28:57Z

← Older revision		Revision as of 11:28, 4 August 2016
Line 1:		Line 1:
	~~{{STRUCTURE_4bwp\| PDB=4bwp \| SCENE= }}~~
	~~===Structure of Drosophila Melanogaster PAN3 pseudokinase===~~
	~~{{ABSTRACT_PUBMED_23932717}}~~

	==~~About this~~ Structure==		==Structure of Drosophila Melanogaster PAN3 pseudokinase==
	[[4bwp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Drosophila_melanogaster Drosophila melanogaster~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4BWP OCA].		<StructureSection load='4bwp' size='340' side='right' caption='[[4bwp]], [[Resolution\|resolution]] 3.60Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[4bwp]] 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=4BWP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4BWP FirstGlance]. <br>
			</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AN2:AMP+PHOSPHORAMIDATE'>AN2</scene></td></tr>
			<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4bwk\|4bwk]], [[4bwx\|4bwx]]</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=4bwp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4bwp OCA], [http://pdbe.org/4bwp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4bwp RCSB], [http://www.ebi.ac.uk/pdbsum/4bwp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4bwp ProSAT]</span></td></tr>
			</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			The PAN2-PAN3 deadenylase complex functions in general and miRNA-mediated mRNA degradation and is specifically recruited to miRNA targets by GW182/TNRC6 proteins. We describe the PAN3 adaptor protein crystal structure that, unexpectedly, forms intertwined and asymmetric homodimers. Dimerization is mediated by a coiled coil that links an N-terminal pseudokinase to a C-terminal knob domain. The PAN3 pseudokinase binds ATP, and this function is required for mRNA degradation in vivo. We further identified conserved surfaces required for mRNA degradation, including the binding surface for the PAN2 deadenylase on the knob domain. The most remarkable structural feature is the presence of a tryptophan-binding pocket at the dimer interface, which mediates binding to TNRC6C in human cells. Together, our data reveal the structural basis for the interaction of PAN3 with PAN2 and the recruitment of the PAN2-PAN3 complex to miRNA targets by TNRC6 proteins.

	~~==Reference==~~		Structure of the PAN3 Pseudokinase Reveals the Basis for Interactions with the PAN2 Deadenylase and the GW182 Proteins.,Christie M, Boland A, Huntzinger E, Weichenrieder O, Izaurralde E Mol Cell. 2013 Aug 8;51(3):360-73. doi: 10.1016/j.molcel.2013.07.011. PMID:23932717<ref>PMID:23932717</ref>
	<ref ~~group="xtra"~~>PMID:~~023932717~~</ref><~~references group~~="~~xtra~~"/><references/>
	[[Category: ~~Drosophila melanogaster~~]]		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	[[Category: Boland, A.]]		</div>
	[[Category: Christie, M.]]		<div class="pdbe-citations 4bwp" style="background-color:#fffaf0;"></div>
	[[Category: Huntzinger, E.]]
	[[Category: Izaurralde, E.]]		==See Also==
	[[Category: Weichenrieder, O.]]		*[[Ribonuclease\|Ribonuclease]]
			== References ==
			<references/>
			__TOC__
			</StructureSection>
			[[Category: Drome]]
			[[Category: Boland, A]]
			[[Category: Christie, M]]
			[[Category: Huntzinger, E]]
			[[Category: Izaurralde, E]]
			[[Category: Weichenrieder, O]]
	[[Category: Deadenylase]]		[[Category: Deadenylase]]
	[[Category: Gene regulation]]		[[Category: Gene regulation]]

OCA at 08:20, 21 August 2013

2013-08-21T08:20:27Z

← Older revision		Revision as of 08:20, 21 August 2013
Line 1:		Line 1:
	~~'''Unreleased structure'''~~		{{STRUCTURE_4bwp\| PDB=4bwp \| SCENE= }}
			===Structure of Drosophila Melanogaster PAN3 pseudokinase===
			{{ABSTRACT_PUBMED_23932717}}

	~~The entry~~ 4bwp is ~~ON HOLD until Paper Publication~~		==About this Structure==
			[[4bwp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4BWP OCA].

	~~Authors~~: ~~Christie, M.,~~ Boland, A., Huntzinger, E., Weichenrieder, O.~~, Izaurralde, E.~~		==Reference==
			<ref group="xtra">PMID:023932717</ref><references group="xtra"/><references/>
	~~Description~~: ~~Structure of Drosophila Melanogaster PAN3 pseudokinase~~		[[Category: Drosophila melanogaster]]
			[[Category: Boland, A.]]
			[[Category: Christie, M.]]
			[[Category: Huntzinger, E.]]
			[[Category: Izaurralde, E.]]
			[[Category: Weichenrieder, O.]]
			[[Category: Deadenylase]]
			[[Category: Gene regulation]]
			[[Category: Mirna]]
			[[Category: Mrna decay]]
			[[Category: Pan2]]

OCA at 03:59, 1 August 2013

2013-08-01T03:59:08Z

← Older revision		Revision as of 03:59, 1 August 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 4bwp is ON HOLD		The entry 4bwp is ON HOLD until Paper Publication

	Authors: Christie, M., Boland, A., Huntzinger, E., Weichenrieder, O., Izaurralde, E.		Authors: Christie, M., Boland, A., Huntzinger, E., Weichenrieder, O., Izaurralde, E.

	Description: Structure of Drosophila PAN3 pseudokinase		Description: Structure of Drosophila Melanogaster PAN3 pseudokinase

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

2013-07-10T14:46:36Z

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

← Older revision	Revision as of 14:46, 10 July 2013
(No difference)

OCA: New page: '''Unreleased structure''' The entry 4bwp is ON HOLD Authors: Christie, M., Boland, A., Huntzinger, E., Weichenrieder, O., Izaurralde, E. Description: Structure of Drosophila PAN3 pseu...

2013-07-10T14:46:35Z

New page: '''Unreleased structure''' The entry 4bwp is ON HOLD Authors: Christie, M., Boland, A., Huntzinger, E., Weichenrieder, O., Izaurralde, E. Description: Structure of Drosophila PAN3 pseu...

New page

'''Unreleased structure'''

The entry 4bwp is ON HOLD

Authors: Christie, M., Boland, A., Huntzinger, E., Weichenrieder, O., Izaurralde, E.

Description: Structure of Drosophila PAN3 pseudokinase