5t0f - Revision history

OCA at 12:52, 4 October 2023

OCA — Wed, 04 Oct 2023 12:52:31 GMT

←Older revision		Revision as of 12:52, 4 October 2023
Line 3:		Line 3:
	<StructureSection load='5t0f' size='340' side='right'caption='[[5t0f]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='5t0f' size='340' side='right'caption='[[5t0f]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5t0f]] is a 2 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=5T0F OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5T0F FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5t0f]] is a 2 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=5T0F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5T0F FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[4rru\|4rru]], [[4rqw\|4rqw]], [[4rs9\|4rs9]]</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]] 2.4Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">MYC3, ATR2, BHLH5, EN36, At5g46760, MZA15~~.~~18 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=3702 ARATH]), TIFY9, JAS1, JAZ10, At5g13220, T31B5.40 ([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=5t0f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5t0f OCA], [https://pdbe.org/5t0f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5t0f RCSB], [https://www.ebi.ac.uk/pdbsum/5t0f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5t0f 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=5t0f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5t0f OCA], [~~http~~://pdbe.org/5t0f PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5t0f RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5t0f PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5t0f ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/MYC3_ARATH MYC3_ARATH]] Transcription factor involved in tryptophan, jasmonic acid (JA) and other stress-responsive gene regulation. With MYC2 and MYC4, controls additively subsets of JA-dependent responses. Can form complexes with all known glucosinolate-related MYBs to regulate glucosinolate biosynthesis. Binds to the G-box (5'-CACGTG-3') of promoters. Activates multiple TIFY/JAZ promoters.<ref>PMID:12136026</ref> <ref>PMID:21242320</ref> <ref>PMID:21321051</ref> <ref>PMID:21335373</ref> <ref>PMID:23943862</ref> [[http://www.uniprot.org/uniprot/TIF9_ARATH TIF9_ARATH]] Modulator of growth inhibition. Isoform 2 and isoform 3, but not isoform 1, confer a strong methyl-jasmonate insensitivity. Not involved in the growth response to salicylic acid or indole-3-acetic acid. Isoform 3 acts as an endogenous repressor of JA signal output in JA-stimulated cells (PubMed:19151223).<ref>PMID:17675405</ref> <ref>PMID:19151223</ref> <ref>PMID:23632853</ref>	+	[https://www.uniprot.org/uniprot/MYC3_ARATH MYC3_ARATH] Transcription factor involved in tryptophan, jasmonic acid (JA) and other stress-responsive gene regulation. With MYC2 and MYC4, controls additively subsets of JA-dependent responses. Can form complexes with all known glucosinolate-related MYBs to regulate glucosinolate biosynthesis. Binds to the G-box (5'-CACGTG-3') of promoters. Activates multiple TIFY/JAZ promoters.<ref>PMID:12136026</ref> <ref>PMID:21242320</ref> <ref>PMID:21321051</ref> <ref>PMID:21335373</ref> <ref>PMID:23943862</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: ~~Arath~~]]	+	[[Category: Arabidopsis thaliana]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Brunzelle~~, J S~~]]	+	[[Category: Brunzelle JS]]
-	[[Category: He~~, S Y~~]]	+	[[Category: He SY]]
-	[[Category: Ke, J]]	+	[[Category: Ke J]]
-	[[Category: Melcher, K]]	+	[[Category: Melcher K]]
-	[[Category: Xu~~, H E~~]]	+	[[Category: Xu HE]]
-	[[Category: Zhang, F]]	+	[[Category: Zhang F]]
-	~~[[Category: Alternative splicing]]~~	+
-	~~[[Category: Desensitization]]~~	+
-	~~[[Category: Jasmonate signaling]]~~	+
-	~~[[Category: Jaz10 cmid]]~~	+
-	~~[[Category: Myc3]]~~	+
-	~~[[Category: Transcription]]~~	+
-	~~[[Category: Transcriptional repression~~]]	+

OCA at 12:26, 25 December 2019

OCA — Wed, 25 Dec 2019 12:26:36 GMT

←Older revision		Revision as of 12:26, 25 December 2019
Line 1:		Line 1:

	==Crystal structure of the Myc3 N-terminal domain [44-242] in complex with JAZ10 CMID domain [16-58] from arabidopsis==		==Crystal structure of the Myc3 N-terminal domain [44-242] in complex with JAZ10 CMID domain [16-58] from arabidopsis==
-	<StructureSection load='5t0f' size='340' side='right' caption='[[5t0f]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='5t0f' size='340' side='right'caption='[[5t0f]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5t0f]] is a 2 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=5T0F OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5T0F FirstGlance]. <br>		<table><tr><td colspan='2'>[[5t0f]] is a 2 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=5T0F OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5T0F FirstGlance]. <br>
Line 24:		Line 24:
	</StructureSection>		</StructureSection>
	[[Category: Arath]]		[[Category: Arath]]
		+	[[Category: Large Structures]]
	[[Category: Brunzelle, J S]]		[[Category: Brunzelle, J S]]
	[[Category: He, S Y]]		[[Category: He, S Y]]

OCA at 07:38, 29 November 2017

OCA — Wed, 29 Nov 2017 07:38:17 GMT

←Older revision		Revision as of 07:38, 29 November 2017
Line 3:		Line 3:
	<StructureSection load='5t0f' size='340' side='right' caption='[[5t0f]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='5t0f' size='340' side='right' caption='[[5t0f]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5t0f]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5T0F OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5T0F FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5t0f]] is a 2 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=5T0F OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5T0F 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=5t0f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5t0f OCA], [http://pdbe.org/5t0f PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5t0f RCSB], [http://www.ebi.ac.uk/pdbsum/5t0f PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5t0f ProSAT]</span></td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4rru\|4rru]], [[4rqw\|4rqw]], [[4rs9\|4rs9]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MYC3, ATR2, BHLH5, EN36, At5g46760, MZA15.18 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH]), TIFY9, JAS1, JAZ10, At5g13220, T31B5.40 ([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=5t0f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5t0f OCA], [http://pdbe.org/5t0f PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5t0f RCSB], [http://www.ebi.ac.uk/pdbsum/5t0f PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5t0f ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 21:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Arath]]
	[[Category: Brunzelle, J S]]		[[Category: Brunzelle, J S]]
	[[Category: He, S Y]]		[[Category: He, S Y]]

OCA at 07:31, 9 March 2017

OCA — Thu, 09 Mar 2017 07:31:42 GMT

←Older revision		Revision as of 07:31, 9 March 2017
Line 8:		Line 8:
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/MYC3_ARATH MYC3_ARATH]] Transcription factor involved in tryptophan, jasmonic acid (JA) and other stress-responsive gene regulation. With MYC2 and MYC4, controls additively subsets of JA-dependent responses. Can form complexes with all known glucosinolate-related MYBs to regulate glucosinolate biosynthesis. Binds to the G-box (5'-CACGTG-3') of promoters. Activates multiple TIFY/JAZ promoters.<ref>PMID:12136026</ref> <ref>PMID:21242320</ref> <ref>PMID:21321051</ref> <ref>PMID:21335373</ref> <ref>PMID:23943862</ref> [[http://www.uniprot.org/uniprot/TIF9_ARATH TIF9_ARATH]] Modulator of growth inhibition. Isoform 2 and isoform 3, but not isoform 1, confer a strong methyl-jasmonate insensitivity. Not involved in the growth response to salicylic acid or indole-3-acetic acid. Isoform 3 acts as an endogenous repressor of JA signal output in JA-stimulated cells (PubMed:19151223).<ref>PMID:17675405</ref> <ref>PMID:19151223</ref> <ref>PMID:23632853</ref>		[[http://www.uniprot.org/uniprot/MYC3_ARATH MYC3_ARATH]] Transcription factor involved in tryptophan, jasmonic acid (JA) and other stress-responsive gene regulation. With MYC2 and MYC4, controls additively subsets of JA-dependent responses. Can form complexes with all known glucosinolate-related MYBs to regulate glucosinolate biosynthesis. Binds to the G-box (5'-CACGTG-3') of promoters. Activates multiple TIFY/JAZ promoters.<ref>PMID:12136026</ref> <ref>PMID:21242320</ref> <ref>PMID:21321051</ref> <ref>PMID:21335373</ref> <ref>PMID:23943862</ref> [[http://www.uniprot.org/uniprot/TIF9_ARATH TIF9_ARATH]] Modulator of growth inhibition. Isoform 2 and isoform 3, but not isoform 1, confer a strong methyl-jasmonate insensitivity. Not involved in the growth response to salicylic acid or indole-3-acetic acid. Isoform 3 acts as an endogenous repressor of JA signal output in JA-stimulated cells (PubMed:19151223).<ref>PMID:17675405</ref> <ref>PMID:19151223</ref> <ref>PMID:23632853</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Jasmonate ZIM-domain (JAZ) transcriptional repressors play a key role in regulating jasmonate (JA) signaling in plants. Below a threshold concentration of jasmonoyl isoleucine (JA-Ile), the active form of JA, the C-terminal Jas motif of JAZ proteins binds MYC transcription factors to repress JA signaling. With increasing JA-Ile concentration, the Jas motif binds to JA-Ile and the COI1 subunit of the SCFCOI1 E3 ligase, which mediates ubiquitination and proteasomal degradation of JAZ repressors, resulting in derepression of MYC transcription factors. JA signaling subsequently becomes desensitized, in part by feedback induction of JAZ splice variants that lack the C-terminal Jas motif but include an N-terminal cryptic MYC-interaction domain (CMID). The CMID sequence is dissimilar to the Jas motif and is incapable of recruiting SCFCOI1, allowing CMID-containing JAZ splice variants to accumulate in the presence of JA and to re-repress MYC transcription factors as an integral part of reestablishing signal homeostasis. The mechanism by which the CMID represses MYC transcription factors remains elusive. Here we describe the crystal structure of the MYC3-CMIDJAZ10 complex. In contrast to the Jas motif, which forms a single continuous helix when bound to MYC3, the CMID adopts a loop-helix-loop-helix architecture with modular interactions with both the Jas-binding groove and the backside of the Jas-interaction domain of MYC3. This clamp-like interaction allows the CMID to bind MYC3 tightly and block access of MED25 (a subunit of the Mediator coactivator complex) to the MYC3 transcriptional activation domain, shedding light on the enigmatic mechanism by which JAZ splice variants desensitize JA signaling.
		+
		+	Structural insights into alternative splicing-mediated desensitization of jasmonate signaling.,Zhang F, Ke J, Zhang L, Chen R, Sugimoto K, Howe GA, Xu HE, Zhou M, He SY, Melcher K Proc Natl Acad Sci U S A. 2017 Feb 14;114(7):1720-1725. doi:, 10.1073/pnas.1616938114. Epub 2017 Jan 30. PMID:28137867<ref>PMID:28137867</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5t0f" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 23:46, 25 January 2017

OCA — Wed, 25 Jan 2017 23:46:11 GMT

←Older revision		Revision as of 23:46, 25 January 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5t0f is ~~ON HOLD~~ ~~until Paper Publication~~	+	==Crystal structure of the Myc3 N-terminal domain [44-242] in complex with JAZ10 CMID domain [16-58] from arabidopsis==
-		+	<StructureSection load='5t0f' size='340' side='right' caption='[[5t0f]], [[Resolution\|resolution]] 2.40Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5t0f]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5T0F OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5T0F FirstGlance]. <br>
-	~~Description~~:	+	</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=5t0f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5t0f OCA], [http://pdbe.org/5t0f PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5t0f RCSB], [http://www.ebi.ac.uk/pdbsum/5t0f PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5t0f ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/MYC3_ARATH MYC3_ARATH]] Transcription factor involved in tryptophan, jasmonic acid (JA) and other stress-responsive gene regulation. With MYC2 and MYC4, controls additively subsets of JA-dependent responses. Can form complexes with all known glucosinolate-related MYBs to regulate glucosinolate biosynthesis. Binds to the G-box (5'-CACGTG-3') of promoters. Activates multiple TIFY/JAZ promoters.<ref>PMID:12136026</ref> <ref>PMID:21242320</ref> <ref>PMID:21321051</ref> <ref>PMID:21335373</ref> <ref>PMID:23943862</ref> [[http://www.uniprot.org/uniprot/TIF9_ARATH TIF9_ARATH]] Modulator of growth inhibition. Isoform 2 and isoform 3, but not isoform 1, confer a strong methyl-jasmonate insensitivity. Not involved in the growth response to salicylic acid or indole-3-acetic acid. Isoform 3 acts as an endogenous repressor of JA signal output in JA-stimulated cells (PubMed:19151223).<ref>PMID:17675405</ref> <ref>PMID:19151223</ref> <ref>PMID:23632853</ref>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Brunzelle, J S]]
		+	[[Category: He, S Y]]
		+	[[Category: Ke, J]]
		+	[[Category: Melcher, K]]
		+	[[Category: Xu, H E]]
		+	[[Category: Zhang, F]]
		+	[[Category: Alternative splicing]]
		+	[[Category: Desensitization]]
		+	[[Category: Jasmonate signaling]]
		+	[[Category: Jaz10 cmid]]
		+	[[Category: Myc3]]
		+	[[Category: Transcription]]
		+	[[Category: Transcriptional repression]]

OCA at 12:05, 21 September 2016

OCA — Wed, 21 Sep 2016 12:05:04 GMT

←Older revision		Revision as of 12:05, 21 September 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5t0f is ON HOLD	+	The entry 5t0f is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "5t0f" [edit=sysop:move=sysop]

OCA — Fri, 09 Sep 2016 15:29:40 GMT

Protected "5t0f" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:29, 9 September 2016

OCA: New page: '''Unreleased structure''' The entry 5t0f is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Fri, 09 Sep 2016 15:29:39 GMT

New page: '''Unreleased structure''' The entry 5t0f is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5t0f is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]