5wi4 - Revision history

OCA at 14:13, 4 October 2023

OCA — Wed, 04 Oct 2023 14:13:42 GMT

←Older revision		Revision as of 14:13, 4 October 2023
Line 3:		Line 3:
	<StructureSection load='5wi4' size='340' side='right'caption='[[5wi4]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='5wi4' size='340' side='right'caption='[[5wi4]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5wi4]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WI4 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5WI4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5wi4]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WI4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5WI4 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2Å</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=5wi4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wi4 OCA], [~~http~~://pdbe.org/5wi4 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5wi4 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5wi4 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5wi4 ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=5wi4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wi4 OCA], [https://pdbe.org/5wi4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5wi4 RCSB], [https://www.ebi.ac.uk/pdbsum/5wi4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5wi4 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/DYLT1_MOUSE DYLT1_MOUSE]] Acts as one of several non-catalytic accessory components of the cytoplasmic dynein 1 complex that are thought to be involved in linking dynein to cargos and to adapter proteins that regulate dynein function. Cytoplasmic dynein 1 acts as a motor for the intracellular retrograde motility of vesicles and organelles along microtubules. Binds to transport cargos and is involved in apical cargo transport such as rhodopsin-bearing vesicles in polarized epithelia (By similarity). May also be a accessory component of axonemal dynein. Plays an important role in male germ cell development and function. Candidate for involvement in male sterility.<ref>PMID:9490726</ref> Plays a role in neuronal morphogenesis; the function is independent of cytoplasmic dynein and seems to be coupled to regulation of the actin cytoskeleton by enhancing Rac1 activity. The function in neurogenesis may be regulated by association with a G-protein beta-gamma dimer. May function as a receptor-independent activator of heterotrimeric G-protein signaling; the activation appears to be independent of a nucleotide exchange. Plays a role in regulating neurogenesis; inhibits the genesis of neurons from precursor cells during cortical development presumably by antagonizing ARHGEF2. Unrelated to the role in retrograde microtubule-associated movement may play a role in the dimerization of cytoplasmic proteins/domains such as for ACVR2B. Binds to the cytoplasmic domain of ACVR2B and, in vitro, inhibits ACVR2B signaling. Involved in the regulation of mitotic spindle orientation.<ref>PMID:10559191</ref> <ref>PMID:19448628</ref>	+	[https://www.uniprot.org/uniprot/ARHG2_MOUSE ARHG2_MOUSE] Activates Rho-GTPases by promoting the exchange of GDP for GTP. May be involved in epithelial barrier permeability, cell motility and polarization, dendritic spine morphology, antigen presentation, leukemic cell differentiation, cell cycle regulation, innate immune response, and cancer. Binds Rac-GTPases, but does not seem to promote nucleotide exchange activity toward Rac-GTPases. May stimulate instead the cortical activity of Rac. Inactive toward CDC42, TC10, or Ras-GTPases. Forms an intracellular sensing system along with NOD1 for the detection of microbial effectors during cell invasion by pathogens. Involved in innate immune signaling transduction pathway promoting cytokine IL6/interleukin-6 and TNF-alpha secretion in macrophage upon stimulation by bacterial peptidoglycans; acts as a signaling intermediate between NOD2 receptor and RIPK2 kinase. Contributes to the tyrosine phosphorylation of RIPK2 through Src tyrosine kinase leading to NF-kappaB activation by NOD2. Overexpression activates Rho-, but not Rac-GTPases, and increases paracellular permeability (By similarity). Involved in neuronal progenitor cell division and differentiation (PubMed:28453519). Involved in the migration of precerebellar neurons (PubMed:28453519).[UniProtKB:Q865S3][UniProtKB:Q92974]<ref>PMID:28453519</ref> [https://www.uniprot.org/uniprot/DYLT1_MOUSE DYLT1_MOUSE] Acts as one of several non-catalytic accessory components of the cytoplasmic dynein 1 complex that are thought to be involved in linking dynein to cargos and to adapter proteins that regulate dynein function. Cytoplasmic dynein 1 acts as a motor for the intracellular retrograde motility of vesicles and organelles along microtubules. Binds to transport cargos and is involved in apical cargo transport such as rhodopsin-bearing vesicles in polarized epithelia (By similarity). May also be a accessory component of axonemal dynein. Plays an important role in male germ cell development and function. Candidate for involvement in male sterility.<ref>PMID:9490726</ref> Plays a role in neuronal morphogenesis; the function is independent of cytoplasmic dynein and seems to be coupled to regulation of the actin cytoskeleton by enhancing Rac1 activity. The function in neurogenesis may be regulated by association with a G-protein beta-gamma dimer. May function as a receptor-independent activator of heterotrimeric G-protein signaling; the activation appears to be independent of a nucleotide exchange. Plays a role in regulating neurogenesis; inhibits the genesis of neurons from precursor cells during cortical development presumably by antagonizing ARHGEF2. Unrelated to the role in retrograde microtubule-associated movement may play a role in the dimerization of cytoplasmic proteins/domains such as for ACVR2B. Binds to the cytoplasmic domain of ACVR2B and, in vitro, inhibits ACVR2B signaling. Involved in the regulation of mitotic spindle orientation.<ref>PMID:10559191</ref> <ref>PMID:19448628</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Balan, M~~]]	+	[[Category: Mus musculus]]
-	[[Category: ~~Ikura,~~ M]]	+	[[Category: Balan M]]
-	[[Category: ~~Ishiyama, N~~]]	+	[[Category: Ikura M]]
-	[[Category: ~~Marshall, C B~~]]	+	[[Category: Ishiyama N]]
-	[[Category: ~~Cargo transport]]~~	+	[[Category: Marshall CB]]
-	~~[[Category: Dynein light chain]]~~	+
-	~~[[Category: Motor protein]]~~	+
-	~~[[Category: Rho gef~~]]	+

OCA at 08:52, 30 September 2020

OCA — Wed, 30 Sep 2020 08:52:37 GMT

←Older revision		Revision as of 08:52, 30 September 2020
Line 1:		Line 1:

	==CRYSTAL STRUCTURE OF DYNLT1/TCTEX-1 IN COMPLEX WITH ARHGEF2==		==CRYSTAL STRUCTURE OF DYNLT1/TCTEX-1 IN COMPLEX WITH ARHGEF2==
-	<StructureSection load='5wi4' size='340' side='right' caption='[[5wi4]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='5wi4' size='340' side='right'caption='[[5wi4]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5wi4]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WI4 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5WI4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5wi4]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WI4 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5WI4 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=5wi4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wi4 OCA], [http://pdbe.org/5wi4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wi4 RCSB], [http://www.ebi.ac.uk/pdbsum/5wi4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wi4 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=5wi4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wi4 OCA], [http://pdbe.org/5wi4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wi4 RCSB], [http://www.ebi.ac.uk/pdbsum/5wi4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wi4 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 5wi4" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5wi4" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Dynein 3D structures\|Dynein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Balan, M]]		[[Category: Balan, M]]
	[[Category: Ikura, M]]		[[Category: Ikura, M]]

OCA at 07:35, 15 November 2017

OCA — Wed, 15 Nov 2017 07:35:33 GMT

←Older revision		Revision as of 07:35, 15 November 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5wi4 is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==CRYSTAL STRUCTURE OF DYNLT1/TCTEX-1 IN COMPLEX WITH ARHGEF2==
		+	<StructureSection load='5wi4' size='340' side='right' caption='[[5wi4]], [[Resolution\|resolution]] 2.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5wi4]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WI4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WI4 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=5wi4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wi4 OCA], [http://pdbe.org/5wi4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wi4 RCSB], [http://www.ebi.ac.uk/pdbsum/5wi4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wi4 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DYLT1_MOUSE DYLT1_MOUSE]] Acts as one of several non-catalytic accessory components of the cytoplasmic dynein 1 complex that are thought to be involved in linking dynein to cargos and to adapter proteins that regulate dynein function. Cytoplasmic dynein 1 acts as a motor for the intracellular retrograde motility of vesicles and organelles along microtubules. Binds to transport cargos and is involved in apical cargo transport such as rhodopsin-bearing vesicles in polarized epithelia (By similarity). May also be a accessory component of axonemal dynein. Plays an important role in male germ cell development and function. Candidate for involvement in male sterility.<ref>PMID:9490726</ref> Plays a role in neuronal morphogenesis; the function is independent of cytoplasmic dynein and seems to be coupled to regulation of the actin cytoskeleton by enhancing Rac1 activity. The function in neurogenesis may be regulated by association with a G-protein beta-gamma dimer. May function as a receptor-independent activator of heterotrimeric G-protein signaling; the activation appears to be independent of a nucleotide exchange. Plays a role in regulating neurogenesis; inhibits the genesis of neurons from precursor cells during cortical development presumably by antagonizing ARHGEF2. Unrelated to the role in retrograde microtubule-associated movement may play a role in the dimerization of cytoplasmic proteins/domains such as for ACVR2B. Binds to the cytoplasmic domain of ACVR2B and, in vitro, inhibits ACVR2B signaling. Involved in the regulation of mitotic spindle orientation.<ref>PMID:10559191</ref> <ref>PMID:19448628</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The PAR-1-MARK pathway controls cell polarity through the phosphorylation of microtubule-associated proteins. Rho-Rac guanine nucleotide exchange factor 2 (ARHGEF2), which activates Ras homolog family member A (RHOA), is anchored to the microtubule network and sequestered in an inhibited state through binding to dynein light chain Tctex-1 type 1 (DYNLT1). We showed in mammalian cells that liver kinase B1 (LKB1) activated the microtubule affinity-regulating kinase 3 (MARK3), which in turn phosphorylated ARHGEF2 at Ser151 This modification disrupted the interaction between ARHGEF2 and DYNLT1 by generating a 14-3-3 binding site in ARHGEF2, thus causing ARHGEF2 to dissociate from microtubules. Phosphorylation of ARHGEF2 by MARK3 stimulated RHOA activation and the formation of stress fibers and focal adhesions, and was required for organized cellular architecture in three-dimensional culture. Protein phosphatase 2A (PP2A) dephosphorylated Ser151 in ARHGEF2 to restore the inhibited state. Thus, we have identified a regulatory switch controlled by MARK3 that couples microtubules to the actin cytoskeleton to establish epithelial cell polarity through ARHGEF2.

-	~~Authors:~~ Balan, M., ~~Ishiyama~~, N., ~~Marshall~~, C.B., ~~Ikura~~, M.	+	MARK3-mediated phosphorylation of ARHGEF2 couples microtubules to the actin cytoskeleton to establish cell polarity.,Sandi MJ, Marshall CB, Balan M, Coyaud E, Zhou M, Monson DM, Ishiyama N, Chandrakumar AA, La Rose J, Couzens AL, Gingras AC, Raught B, Xu W, Ikura M, Morrison DK, Rottapel R Sci Signal. 2017 Oct 31;10(503). pii: eaan3286. doi: 10.1126/scisignal.aan3286. PMID:29089450<ref>PMID:29089450</ref>

-	~~Description: CRYSTAL STRUCTURE OF DYNLT1~~/~~TCTEX-1 IN COMPLEX WITH ARHGEF2~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
		+	<div class="pdbe-citations 5wi4" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Balan, M]]		[[Category: Balan, M]]
-	[[Category: Marshall, C.B]]
	[[Category: Ikura, M]]		[[Category: Ikura, M]]
	[[Category: Ishiyama, N]]		[[Category: Ishiyama, N]]
		+	[[Category: Marshall, C B]]
		+	[[Category: Cargo transport]]
		+	[[Category: Dynein light chain]]
		+	[[Category: Motor protein]]
		+	[[Category: Rho gef]]

OCA: Protected "5wi4" [edit=sysop:move=sysop]

OCA — Wed, 27 Sep 2017 14:50:47 GMT

Protected "5wi4" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:50, 27 September 2017

OCA: New page: '''Unreleased structure''' The entry 5wi4 is ON HOLD until Paper Publication Authors: Balan, M., Ishiyama, N., Marshall, C.B., Ikura, M. Description: CRYSTAL STRUCTURE OF DYNLT1/TCTEX-...

OCA — Wed, 27 Sep 2017 14:50:46 GMT

New page: '''Unreleased structure''' The entry 5wi4 is ON HOLD until Paper Publication Authors: Balan, M., Ishiyama, N., Marshall, C.B., Ikura, M. Description: CRYSTAL STRUCTURE OF DYNLT1/TCTEX-...

New page

'''Unreleased structure'''

The entry 5wi4 is ON HOLD until Paper Publication

Authors: Balan, M., Ishiyama, N., Marshall, C.B., Ikura, M.

Description: CRYSTAL STRUCTURE OF DYNLT1/TCTEX-1 IN COMPLEX WITH ARHGEF2
[[Category: Unreleased Structures]]
[[Category: Balan, M]]
[[Category: Marshall, C.B]]
[[Category: Ikura, M]]
[[Category: Ishiyama, N]]