2p1n - Revision history

OCA at 10:52, 30 August 2023

2023-08-30T10:52:33Z

←Older revision		Revision as of 10:52, 30 August 2023
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	<StructureSection load='2p1n' size='340' side='right'caption='[[2p1n]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='2p1n' size='340' side='right'caption='[[2p1n]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2p1n]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Arath Arath~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1N OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2P1N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2p1n]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2P1N FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CFA:(2,4~~-~~DICHLOROPHENOXY)ACETIC+ACID'>CFA</scene>~~, ~~<scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</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]] 2.5Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[2p1m\|2p1m]], [[2p1o\|2p1o]], [[2p1p\|2p1p]], [[2p1q\|2p1q]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CFA:(2,4-DICHLOROPHENOXY)ACETIC+ACID'>CFA</scene>, <scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene></td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~"><~~b>[[Gene\|Gene~~:~~]]</b~~></td><~~td class~~=~~"sblockDat">SKP1A, ASK1, SKP1, UIP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode=5&id=3702 ARATH]), TIR1, FBL1, WEI1 ([http~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])~~</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=2p1n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1n OCA], [https://pdbe.org/2p1n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2p1n RCSB], [https://www.ebi.ac.uk/pdbsum/2p1n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2p1n 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=2p1n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1n OCA], [~~http~~://pdbe.org/2p1n PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2p1n RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2p1n PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2p1n ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/SKP1A_ARATH SKP1A_ARATH]] Involved in ubiquitination and subsequent proteasomal degradation of target proteins. Together with CUL1, RBX1 and a F-box protein, it forms a SCF E3 ubiquitin ligase complex. The functional specificity of this complex depends of the type of F-box protein. In the SCF complex, it serves as an adapter that links the F-box protein to CUL1. SCF(UFO) is required for vegetative and floral organ development as well as for male gametogenesis. SCF(TIR1) is involved in auxin signaling pathway. SCF(COI1) regulates responses to jasmonates. SCF(EID1) and SCF(AFR) are implicated in phytochrome A light signaling. SCF(ADO1), SCF(ADO2), SCF(ADO3) are related to the circadian clock. SCF(ORE9) seems to be involved in senescence. SCF(EBF1/EBF2) may regulate ethylene signaling. Plays a role during embryogenesis and early postembryonic development, especially during cell elongation and division. Contributes to the correct chromosome segregation during tetrad formation.<ref>PMID:10528262</ref> <ref>PMID:10398681</ref> <ref>PMID:10500191</ref> <ref>PMID:11526079</ref> <ref>PMID:12970487</ref> <ref>PMID:14688296</ref> [[http://www.uniprot.org/uniprot/IAA7_ARATH IAA7_ARATH]] Aux/IAA proteins are short-lived transcriptional factors that function as repressors of early auxin response genes at low auxin concentrations. Repression is thought to result from the interaction with auxin response factors (ARFs), proteins that bind to the auxin-responsive promoter element (AuxRE). Formation of heterodimers with ARF proteins may alter their ability to modulate early auxin response genes expression.<ref>PMID:12036262</ref> [[http://www.uniprot.org/uniprot/TIR1_ARATH TIR1_ARATH]] Auxin receptor that mediates Aux/IAA proteins proteasomal degradation and auxin-regulated transcription. The SCF(TIR1) E3 ubiquitin ligase complex is involved in auxin-mediated signaling pathway that regulate root and hypocotyl growth, lateral root formation, cell elongation, and gravitropism. Appears to allow pericycle cells to overcome G2 arrest prior to lateral root development. Plays a role in ethylene signaling in roots. Confers sensitivity to the virulent bacterial pathogen P.syringae.<ref>PMID:9436980</ref> <ref>PMID:10398681</ref> <ref>PMID:12606727</ref> <ref>PMID:15992545</ref> <ref>PMID:15917797</ref> <ref>PMID:15917798</ref> <ref>PMID:16627744</ref> <ref>PMID:18391211</ref>	+	[https://www.uniprot.org/uniprot/SKP1A_ARATH SKP1A_ARATH] Involved in ubiquitination and subsequent proteasomal degradation of target proteins. Together with CUL1, RBX1 and a F-box protein, it forms a SCF E3 ubiquitin ligase complex. The functional specificity of this complex depends of the type of F-box protein. In the SCF complex, it serves as an adapter that links the F-box protein to CUL1. SCF(UFO) is required for vegetative and floral organ development as well as for male gametogenesis. SCF(TIR1) is involved in auxin signaling pathway. SCF(COI1) regulates responses to jasmonates. SCF(EID1) and SCF(AFR) are implicated in phytochrome A light signaling. SCF(ADO1), SCF(ADO2), SCF(ADO3) are related to the circadian clock. SCF(ORE9) seems to be involved in senescence. SCF(EBF1/EBF2) may regulate ethylene signaling. Plays a role during embryogenesis and early postembryonic development, especially during cell elongation and division. Contributes to the correct chromosome segregation during tetrad formation.<ref>PMID:10528262</ref> <ref>PMID:10398681</ref> <ref>PMID:10500191</ref> <ref>PMID:11526079</ref> <ref>PMID:12970487</ref> <ref>PMID:14688296</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	==See Also==		==See Also==
-	*[[Herbicide 2%2C4-D bound to TIR1 Ubiquitin Ligase\|Herbicide 2%2C4-D bound to TIR1 Ubiquitin Ligase]]
	*[[Transport inhibitor response 1\|Transport inhibitor response 1]]		*[[Transport inhibitor response 1\|Transport inhibitor response 1]]
	== References ==		== References ==
Line 38:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Arath~~]]	+	[[Category: Arabidopsis thaliana]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Calderon-Villalobos~~, L I.A~~]]	+	[[Category: Calderon-Villalobos LIA]]
-	[[Category: Estelle, M]]	+	[[Category: Estelle M]]
-	[[Category: Robinson~~, C V~~]]	+	[[Category: Robinson CV]]
-	[[Category: Sharon, M]]	+	[[Category: Sharon M]]
-	[[Category: Tan, X]]	+	[[Category: Tan X]]
-	[[Category: Zheng, C]]	+	[[Category: Zheng C]]
-	[[Category: Zheng, N]]	+	[[Category: Zheng N]]
-	~~[[Category: F-box]]~~	+
-	~~[[Category: Leucine rich repeat]]~~	+
-	~~[[Category: Signaling protein~~]]	+

OCA at 05:54, 14 October 2020

2020-10-14T05:54:42Z

←Older revision		Revision as of 05:54, 14 October 2020
Line 1:		Line 1:

	==Mechanism of Auxin Perception by the TIR1 Ubiqutin Ligase==		==Mechanism of Auxin Perception by the TIR1 Ubiqutin Ligase==
-	<StructureSection load='2p1n' size='340' side='right' caption='[[2p1n]], [[Resolution\|resolution]] 2.50Å' scene=''>	+	<StructureSection load='2p1n' size='340' side='right'caption='[[2p1n]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2p1n]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Arath Arath]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1N OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2P1N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2p1n]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Arath Arath]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1N OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2P1N FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CFA:(2,4-DICHLOROPHENOXY)ACETIC+ACID'>CFA</scene>, <scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CFA:(2,4-DICHLOROPHENOXY)ACETIC+ACID'>CFA</scene>, <scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2p1m\|2p1m]], [[2p1o\|2p1o]], [[2p1p\|2p1p]], [[2p1q\|2p1q]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2p1m\|2p1m]], [[2p1o\|2p1o]], [[2p1p\|2p1p]], [[2p1q\|2p1q]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SKP1A, ASK1, SKP1, UIP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH]), TIR1, FBL1, WEI1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SKP1A, ASK1, SKP1, UIP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH]), TIR1, FBL1, WEI1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</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=2p1n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1n OCA], [http://pdbe.org/2p1n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2p1n RCSB], [http://www.ebi.ac.uk/pdbsum/2p1n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2p1n 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=2p1n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1n OCA], [http://pdbe.org/2p1n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2p1n RCSB], [http://www.ebi.ac.uk/pdbsum/2p1n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2p1n ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	</StructureSection>		</StructureSection>
	[[Category: Arath]]		[[Category: Arath]]
		+	[[Category: Large Structures]]
	[[Category: Calderon-Villalobos, L I.A]]		[[Category: Calderon-Villalobos, L I.A]]
	[[Category: Estelle, M]]		[[Category: Estelle, M]]

OCA at 07:11, 22 August 2018

2018-08-22T07:11:29Z

←Older revision		Revision as of 07:11, 22 August 2018
Line 1:		Line 1:
		+
	==Mechanism of Auxin Perception by the TIR1 Ubiqutin Ligase==		==Mechanism of Auxin Perception by the TIR1 Ubiqutin Ligase==
	<StructureSection load='2p1n' size='340' side='right' caption='[[2p1n]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='2p1n' size='340' side='right' caption='[[2p1n]], [[Resolution\|resolution]] 2.50Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2p1m\|2p1m]], [[2p1o\|2p1o]], [[2p1p\|2p1p]], [[2p1q\|2p1q]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2p1m\|2p1m]], [[2p1o\|2p1o]], [[2p1p\|2p1p]], [[2p1q\|2p1q]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SKP1A, ASK1, SKP1, UIP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH]), TIR1, FBL1, WEI1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SKP1A, ASK1, SKP1, UIP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH]), TIR1, FBL1, WEI1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</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=2p1n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1n OCA], [http://pdbe.org/2p1n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2p1n RCSB], [http://www.ebi.ac.uk/pdbsum/2p1n 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=2p1n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1n OCA], [http://pdbe.org/2p1n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2p1n RCSB], [http://www.ebi.ac.uk/pdbsum/2p1n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2p1n ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 14:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/p1/2p1n_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/p1/2p1n_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 20:18, 8 February 2016

2016-02-08T20:18:58Z

←Older revision		Revision as of 20:18, 8 February 2016
Line 18:		Line 18:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2p1n ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 15:02, 10 September 2015

2015-09-10T15:02:43Z

←Older revision		Revision as of 15:02, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2p1n' size='340' side='right' caption='[[2p1n]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='2p1n' size='340' side='right' caption='[[2p1n]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2p1n]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Arabidopsis_thaliana Arabidopsis thaliana~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2P1N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2p1n]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Arath Arath]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2P1N FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CFA:(2,4-DICHLOROPHENOXY)ACETIC+ACID'>CFA</scene>, <scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CFA:(2,4-DICHLOROPHENOXY)ACETIC+ACID'>CFA</scene>, <scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2p1m\|2p1m]], [[2p1o\|2p1o]], [[2p1p\|2p1p]], [[2p1q\|2p1q]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2p1m\|2p1m]], [[2p1o\|2p1o]], [[2p1p\|2p1p]], [[2p1q\|2p1q]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SKP1A, ASK1, SKP1, UIP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ~~Arabidopsis thaliana~~]), TIR1, FBL1, WEI1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ~~Arabidopsis thaliana~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SKP1A, ASK1, SKP1, UIP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH]), TIR1, FBL1, WEI1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</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=2p1n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1n OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2p1n RCSB], [http://www.ebi.ac.uk/pdbsum/2p1n 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=2p1n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1n OCA], [http://pdbe.org/2p1n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2p1n RCSB], [http://www.ebi.ac.uk/pdbsum/2p1n PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	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 2p1n" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 36:		Line 37:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Arabidopsis thaliana~~]]	+	[[Category: Arath]]
	[[Category: Calderon-Villalobos, L I.A]]		[[Category: Calderon-Villalobos, L I.A]]
	[[Category: Estelle, M]]		[[Category: Estelle, M]]

OCA at 01:54, 25 December 2014

2014-12-25T01:54:06Z

←Older revision		Revision as of 01:54, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2p1n]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2P1N FirstGlance]. <br>		<table><tr><td colspan='2'>[[2p1n]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2P1N FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CFA:(2,4-DICHLOROPHENOXY)ACETIC+ACID'>CFA</scene>, <scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CFA:(2,4-DICHLOROPHENOXY)ACETIC+ACID'>CFA</scene>, <scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2p1m\|2p1m]], [[2p1o\|2p1o]], [[2p1p\|2p1p]], [[2p1q\|2p1q]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2p1m\|2p1m]], [[2p1o\|2p1o]], [[2p1p\|2p1p]], [[2p1q\|2p1q]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SKP1A, ASK1, SKP1, UIP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 Arabidopsis thaliana]), TIR1, FBL1, WEI1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 Arabidopsis thaliana])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SKP1A, ASK1, SKP1, UIP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 Arabidopsis thaliana]), TIR1, FBL1, WEI1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 Arabidopsis thaliana])</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2p1n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1n OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2p1n RCSB], [http://www.ebi.ac.uk/pdbsum/2p1n 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=2p1n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1n OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2p1n RCSB], [http://www.ebi.ac.uk/pdbsum/2p1n PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SKP1A_ARATH SKP1A_ARATH]] Involved in ubiquitination and subsequent proteasomal degradation of target proteins. Together with CUL1, RBX1 and a F-box protein, it forms a SCF E3 ubiquitin ligase complex. The functional specificity of this complex depends of the type of F-box protein. In the SCF complex, it serves as an adapter that links the F-box protein to CUL1. SCF(UFO) is required for vegetative and floral organ development as well as for male gametogenesis. SCF(TIR1) is involved in auxin signaling pathway. SCF(COI1) regulates responses to jasmonates. SCF(EID1) and SCF(AFR) are implicated in phytochrome A light signaling. SCF(ADO1), SCF(ADO2), SCF(ADO3) are related to the circadian clock. SCF(ORE9) seems to be involved in senescence. SCF(EBF1/EBF2) may regulate ethylene signaling. Plays a role during embryogenesis and early postembryonic development, especially during cell elongation and division. Contributes to the correct chromosome segregation during tetrad formation.<ref>PMID:10528262</ref> <ref>PMID:10398681</ref> <ref>PMID:10500191</ref> <ref>PMID:11526079</ref> <ref>PMID:12970487</ref> <ref>PMID:14688296</ref> [[http://www.uniprot.org/uniprot/IAA7_ARATH IAA7_ARATH]] Aux/IAA proteins are short-lived transcriptional factors that function as repressors of early auxin response genes at low auxin concentrations. Repression is thought to result from the interaction with auxin response factors (ARFs), proteins that bind to the auxin-responsive promoter element (AuxRE). Formation of heterodimers with ARF proteins may alter their ability to modulate early auxin response genes expression.<ref>PMID:12036262</ref> [[http://www.uniprot.org/uniprot/TIR1_ARATH TIR1_ARATH]] Auxin receptor that mediates Aux/IAA proteins proteasomal degradation and auxin-regulated transcription. The SCF(TIR1) E3 ubiquitin ligase complex is involved in auxin-mediated signaling pathway that regulate root and hypocotyl growth, lateral root formation, cell elongation, and gravitropism. Appears to allow pericycle cells to overcome G2 arrest prior to lateral root development. Plays a role in ethylene signaling in roots. Confers sensitivity to the virulent bacterial pathogen P.syringae.<ref>PMID:9436980</ref> <ref>PMID:10398681</ref> <ref>PMID:12606727</ref> <ref>PMID:15992545</ref> <ref>PMID:15917797</ref> <ref>PMID:15917798</ref> <ref>PMID:16627744</ref> <ref>PMID:18391211</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Arabidopsis thaliana]]		[[Category: Arabidopsis thaliana]]
-	[[Category: Calderon-Villalobos, L I.A.]]	+	[[Category: Calderon-Villalobos, L I.A]]
-	[[Category: Estelle, M.]]	+	[[Category: Estelle, M]]
-	[[Category: Robinson, C V.]]	+	[[Category: Robinson, C V]]
-	[[Category: Sharon, M.]]	+	[[Category: Sharon, M]]
-	[[Category: Tan, X.]]	+	[[Category: Tan, X]]
-	[[Category: Zheng, C.]]	+	[[Category: Zheng, C]]
-	[[Category: Zheng, N.]]	+	[[Category: Zheng, N]]
	[[Category: F-box]]		[[Category: F-box]]
	[[Category: Leucine rich repeat]]		[[Category: Leucine rich repeat]]
	[[Category: Signaling protein]]		[[Category: Signaling protein]]

OCA at 09:02, 29 September 2014

2014-09-29T09:02:37Z

←Older revision		Revision as of 09:02, 29 September 2014
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-	[[~~Image:~~2p1n.~~png~~\|~~left~~\|200px]]	+	==Mechanism of Auxin Perception by the TIR1 Ubiqutin Ligase==
		+	<StructureSection load='2p1n' size='340' side='right' caption='[[2p1n]], [[Resolution\|resolution]] 2.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2p1n]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2P1N FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CFA:(2,4-DICHLOROPHENOXY)ACETIC+ACID'>CFA</scene>, <scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2p1m\|2p1m]], [[2p1o\|2p1o]], [[2p1p\|2p1p]], [[2p1q\|2p1q]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SKP1A, ASK1, SKP1, UIP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 Arabidopsis thaliana]), TIR1, FBL1, WEI1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 Arabidopsis thaliana])</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2p1n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1n OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2p1n RCSB], [http://www.ebi.ac.uk/pdbsum/2p1n PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/p1/2p1n_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Auxin is a pivotal plant hormone that controls many aspects of plant growth and development. Perceived by a small family of F-box proteins including transport inhibitor response 1 (TIR1), auxin regulates gene expression by promoting SCF ubiquitin-ligase-catalysed degradation of the Aux/IAA transcription repressors, but how the TIR1 F-box protein senses and becomes activated by auxin remains unclear. Here we present the crystal structures of the Arabidopsis TIR1-ASK1 complex, free and in complexes with three different auxin compounds and an Aux/IAA substrate peptide. These structures show that the leucine-rich repeat domain of TIR1 contains an unexpected inositol hexakisphosphate co-factor and recognizes auxin and the Aux/IAA polypeptide substrate through a single surface pocket. Anchored to the base of the TIR1 pocket, auxin binds to a partially promiscuous site, which can also accommodate various auxin analogues. Docked on top of auxin, the Aux/IAA substrate peptide occupies the rest of the TIR1 pocket and completely encloses the hormone-binding site. By filling in a hydrophobic cavity at the protein interface, auxin enhances the TIR1-substrate interactions by acting as a 'molecular glue'. Our results establish the first structural model of a plant hormone receptor.

-	~~{{STRUCTURE_2p1n\| PDB=2p1n \| SCENE= }}~~	+	Mechanism of auxin perception by the TIR1 ubiquitin ligase.,Tan X, Calderon-Villalobos LI, Sharon M, Zheng C, Robinson CV, Estelle M, Zheng N Nature. 2007 Apr 5;446(7136):640-5. PMID:17410169<ref>PMID:17410169</ref>

-	~~===Mechanism~~ of ~~Auxin Perception by~~ the ~~TIR1 Ubiqutin Ligase===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_17410169}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2p1n]] is a 6 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2P1N OCA].~~	+

	==See Also==		==See Also==
		+	*[[Herbicide 2%2C4-D bound to TIR1 Ubiquitin Ligase\|Herbicide 2%2C4-D bound to TIR1 Ubiquitin Ligase]]
	*[[Transport inhibitor response 1\|Transport inhibitor response 1]]		*[[Transport inhibitor response 1\|Transport inhibitor response 1]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:017410169<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Arabidopsis thaliana]]		[[Category: Arabidopsis thaliana]]
	[[Category: Calderon-Villalobos, L I.A.]]		[[Category: Calderon-Villalobos, L I.A.]]

OCA at 11:21, 20 October 2012

2012-10-20T11:21:17Z

←Older revision		Revision as of 11:21, 20 October 2012
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	[[Image:2p1n.png\|left\|200px]]		[[Image:2p1n.png\|left\|200px]]

-	<!--
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	{{STRUCTURE_2p1n\| PDB=2p1n \| SCENE= }}		{{STRUCTURE_2p1n\| PDB=2p1n \| SCENE= }}

	===Mechanism of Auxin Perception by the TIR1 Ubiqutin Ligase===		===Mechanism of Auxin Perception by the TIR1 Ubiqutin Ligase===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17410169}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17410169 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_17410169}}		{{ABSTRACT_PUBMED_17410169}}

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	==See Also==		==See Also==
-	*[[~~Herbicide 2%2C4-D bound to TIR1 Ubiquitin Ligase~~\|~~Herbicide 2%2C4-D bound to TIR1 Ubiquitin Ligase]]~~	+	*[[Transport inhibitor response 1\|Transport inhibitor response 1]]
-	*[[TIR1 ubiquitin ligase\|TIR1 ubiquitin ligase]]	+

	==Reference==		==Reference==

OCA at 07:21, 13 June 2012

2012-06-13T07:21:21Z

←Older revision		Revision as of 07:21, 13 June 2012
Line 20:		Line 20:
	==About this Structure==		==About this Structure==
	[[2p1n]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1N OCA].		[[2p1n]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1N OCA].
		+
		+	==See Also==
		+	*[[Herbicide 2%2C4-D bound to TIR1 Ubiquitin Ligase\|Herbicide 2%2C4-D bound to TIR1 Ubiquitin Ligase]]
		+	*[[TIR1 ubiquitin ligase\|TIR1 ubiquitin ligase]]

	==Reference==		==Reference==

OCA: Protected "2p1n" [edit=sysop:move=sysop]

2012-06-10T15:48:11Z

Protected "2p1n" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:48, 10 June 2012