8i5v - Revision history

OCA at 19:53, 29 May 2024

OCA — Wed, 29 May 2024 19:53:04 GMT

←Older revision		Revision as of 19:53, 29 May 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[8i5v]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8I5V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8I5V FirstGlance]. <br>		<table><tr><td colspan='2'>[[8i5v]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8I5V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8I5V 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]] 1.726Å</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=8i5v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8i5v OCA], [https://pdbe.org/8i5v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8i5v RCSB], [https://www.ebi.ac.uk/pdbsum/8i5v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8i5v 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=8i5v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8i5v OCA], [https://pdbe.org/8i5v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8i5v RCSB], [https://www.ebi.ac.uk/pdbsum/8i5v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8i5v ProSAT]</span></td></tr>
	</table>		</table>
Line 13:		Line 14:
	Dedicator of cytokinesis 10 (DOCK10), an evolutionarily conserved guanine nucleotide exchange factor (GEF) for Rho GTPases, has the unique specificity within the DOCK-D subfamily to activate both Cdc42 and Rac, but the structural bases for these activities remained unknown. Here we present the crystal structures of the catalytic DHR2 domain of mouse DOCK10, complexed with either Cdc42 or Rac1. The structures revealed that DOCK10(DHR2) binds to Cdc42 or Rac1 by slightly changing the arrangement of its two catalytic lobes. DOCK10 also has a flexible binding pocket for the 56th GTPase residue, allowing a novel interaction with Trp56(Rac1). The conserved residues in switch 1 of Cdc42 and Rac1 showed common interactions with the unique Lys-His sequence in the beta5/beta6 loop of DOCK10(DHR2). However, the interaction of switch 1 in Rac1 was less stable than that of switch 1 in Cdc42, due to amino acid differences at positions 27 and 30. Structure-based mutagenesis identified the DOCK10 residues that determine the Cdc42/Rac1 dual specificity.		Dedicator of cytokinesis 10 (DOCK10), an evolutionarily conserved guanine nucleotide exchange factor (GEF) for Rho GTPases, has the unique specificity within the DOCK-D subfamily to activate both Cdc42 and Rac, but the structural bases for these activities remained unknown. Here we present the crystal structures of the catalytic DHR2 domain of mouse DOCK10, complexed with either Cdc42 or Rac1. The structures revealed that DOCK10(DHR2) binds to Cdc42 or Rac1 by slightly changing the arrangement of its two catalytic lobes. DOCK10 also has a flexible binding pocket for the 56th GTPase residue, allowing a novel interaction with Trp56(Rac1). The conserved residues in switch 1 of Cdc42 and Rac1 showed common interactions with the unique Lys-His sequence in the beta5/beta6 loop of DOCK10(DHR2). However, the interaction of switch 1 in Rac1 was less stable than that of switch 1 in Cdc42, due to amino acid differences at positions 27 and 30. Structure-based mutagenesis identified the DOCK10 residues that determine the Cdc42/Rac1 dual specificity.

-	Structural basis for the dual GTPase specificity of the DOCK10 guanine nucleotide exchange factor.,Kukimoto-Niino M, Ihara K, Mishima-Tsumagari C, Inoue M, Fukui Y, Yokoyama S, Shirouzu M Biochem Biophys Res Commun. 2023 ~~Feb 21~~;653:12-20. doi: , 10.1016/j.bbrc.2023.02.054. PMID:36848820<ref>PMID:36848820</ref>	+	Structural basis for the dual GTPase specificity of the DOCK10 guanine nucleotide exchange factor.,Kukimoto-Niino M, Ihara K, Mishima-Tsumagari C, Inoue M, Fukui Y, Yokoyama S, Shirouzu M Biochem Biophys Res Commun. 2023 Apr 23;653:12-20. doi: , 10.1016/j.bbrc.2023.02.054. Epub 2023 Feb 21. PMID:36848820<ref>PMID:36848820</ref>

	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 8i5v" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 8i5v" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Dedicator of cytokinesis protein 3D structures\|Dedicator of cytokinesis protein 3D structures]]
		+	*[[Rac 3D structures\|Rac 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 09:54, 15 March 2023

OCA — Wed, 15 Mar 2023 09:54:42 GMT

←Older revision		Revision as of 09:54, 15 March 2023
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 8i5v is ~~ON HOLD~~	+	==DOCK10 mutant L1903Y complexed with Rac1==
		+	<StructureSection load='8i5v' size='340' side='right'caption='[[8i5v]], [[Resolution\|resolution]] 1.73Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[8i5v]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8I5V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8I5V 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>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=8i5v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8i5v OCA], [https://pdbe.org/8i5v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8i5v RCSB], [https://www.ebi.ac.uk/pdbsum/8i5v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8i5v ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/DOC10_MOUSE DOC10_MOUSE] Guanine nucleotide-exchange factor (GEF) that activates CDC42 and RAC1 by exchanging bound GDP for free GTP. Essential for dendritic spine morphogenesis in Purkinje cells and in hippocampal neurons, via a CDC42-mediated pathway (PubMed:25851601). Sustains B-cell lymphopoiesis in secondary lymphoid tissues and regulates FCER2/CD23 expression (PubMed:27502165).<ref>PMID:25851601</ref> <ref>PMID:27502165</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Dedicator of cytokinesis 10 (DOCK10), an evolutionarily conserved guanine nucleotide exchange factor (GEF) for Rho GTPases, has the unique specificity within the DOCK-D subfamily to activate both Cdc42 and Rac, but the structural bases for these activities remained unknown. Here we present the crystal structures of the catalytic DHR2 domain of mouse DOCK10, complexed with either Cdc42 or Rac1. The structures revealed that DOCK10(DHR2) binds to Cdc42 or Rac1 by slightly changing the arrangement of its two catalytic lobes. DOCK10 also has a flexible binding pocket for the 56th GTPase residue, allowing a novel interaction with Trp56(Rac1). The conserved residues in switch 1 of Cdc42 and Rac1 showed common interactions with the unique Lys-His sequence in the beta5/beta6 loop of DOCK10(DHR2). However, the interaction of switch 1 in Rac1 was less stable than that of switch 1 in Cdc42, due to amino acid differences at positions 27 and 30. Structure-based mutagenesis identified the DOCK10 residues that determine the Cdc42/Rac1 dual specificity.

-	~~Authors~~:	+	Structural basis for the dual GTPase specificity of the DOCK10 guanine nucleotide exchange factor.,Kukimoto-Niino M, Ihara K, Mishima-Tsumagari C, Inoue M, Fukui Y, Yokoyama S, Shirouzu M Biochem Biophys Res Commun. 2023 Feb 21;653:12-20. doi: , 10.1016/j.bbrc.2023.02.054. PMID:36848820<ref>PMID:36848820</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 8i5v" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Homo sapiens]]
		+	[[Category: Large Structures]]
		+	[[Category: Mus musculus]]
		+	[[Category: Fukui Y]]
		+	[[Category: Ihara K]]
		+	[[Category: Kukimoto-Niino M]]
		+	[[Category: Mishima-Tsumagari C]]
		+	[[Category: Shirouzu M]]
		+	[[Category: Yokoyama S]]

OCA: Protected "8i5v" [edit=sysop:move=sysop]

OCA — Wed, 01 Feb 2023 09:39:44 GMT

Protected "8i5v" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:39, 1 February 2023

OCA: New page: '''Unreleased structure''' The entry 8i5v is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 01 Feb 2023 09:39:43 GMT

New page: '''Unreleased structure''' The entry 8i5v is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 8i5v is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]