3rap - Revision history

OCA at 12:16, 14 March 2024

OCA — Thu, 14 Mar 2024 12:16:19 GMT

←Older revision		Revision as of 12:16, 14 March 2024
Line 3:		Line 3:
	<StructureSection load='3rap' size='340' side='right'caption='[[3rap]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='3rap' size='340' side='right'caption='[[3rap]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3rap]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RAP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3RAP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3rap]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RAP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RAP FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 2.2Å</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=3rap FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rap OCA], [~~http~~://pdbe.org/3rap PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3rap RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3rap PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3rap ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=3rap FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rap OCA], [https://pdbe.org/3rap PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rap RCSB], [https://www.ebi.ac.uk/pdbsum/3rap PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rap ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/RAP2A_HUMAN RAP2A_HUMAN]] Small GTP-binding protein which cycles between a GDP-bound inactive and a GTP-bound active form. In its active form interacts with and regulates several effectors including MAP4K4, MINK1 and TNIK. Part of a signaling complex composed of NEDD4, RAP2A and TNIK which regulates neuronal dendrite extension and arborization during development. More generally, it is part of several signaling cascades and may regulate cytoskeletal rearrangements, cell migration, cell adhesion and cell spreading.<ref>PMID:14966141</ref> <ref>PMID:15342639</ref> <ref>PMID:16246175</ref> <ref>PMID:16540189</ref> <ref>PMID:18930710</ref> <ref>PMID:20159449</ref>	+	[https://www.uniprot.org/uniprot/RAP2A_HUMAN RAP2A_HUMAN] Small GTP-binding protein which cycles between a GDP-bound inactive and a GTP-bound active form. In its active form interacts with and regulates several effectors including MAP4K4, MINK1 and TNIK. Part of a signaling complex composed of NEDD4, RAP2A and TNIK which regulates neuronal dendrite extension and arborization during development. More generally, it is part of several signaling cascades and may regulate cytoskeletal rearrangements, cell migration, cell adhesion and cell spreading.<ref>PMID:14966141</ref> <ref>PMID:15342639</ref> <ref>PMID:16246175</ref> <ref>PMID:16540189</ref> <ref>PMID:18930710</ref> <ref>PMID:20159449</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 19:		Line 20:
	</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=3rap 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=3rap ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	We report a novel crystal form of the small G protein Rap2A in complex with GTP which has no GTPase activity in the crystal. The asymmetric unit contains two complexes which show that a conserved switch I residue, Tyr 32, contributes an extra hydrogen bond to the gamma-phosphate of GTP as compared to related structures with GTP analogs. Since GTP is not hydrolyzed in the crystal, this interaction is unlikely to contribute to the intrinsic GTPase activity. The comparison of other G protein structures to the Rap2-GTP complex suggests that an equivalent interaction is likely to exist in their GTP form, whether unbound or bound to an effector. This interaction has to be released to allow the GAP-activated GTPase, and presumably the intrinsic GTPase activity as well. We also discuss the definition of the flexible regions and their hinges in the light of this structure and the expanding database of G protein structures. We propose that the switch I and switch II undergo either partial or complete disorder-to-order transitions according to their cellular status, thus defining a complex energy landscape comprising more than two conformational states. We observe in addition that the region connecting the switch I and switch II is flexible in Rap2 and other G proteins. This region may be important for protein-protein interactions and possibly behave as a conformational lever arm, as characterized for Arf. Taken together, these observations suggest that the structural mechanisms of small G proteins are significantly driven by entropy-based free energy changes.
-
-	Structure of the small G protein Rap2 in a non-catalytic complex with GTP.,Menetrey J, Cherfils J Proteins. 1999 Nov 15;37(3):465-73. PMID:10591105<ref>PMID:10591105</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 3rap" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Cherfils, J]]	+	[[Category: Cherfils J]]
-	[[Category: Menetrey, J]]	+	[[Category: Menetrey J]]
-	~~[[Category: G protein]]~~	+
-	~~[[Category: Gtpase]]~~	+
-	~~[[Category: Ra]]~~	+
-	~~[[Category: Rap2]]~~	+
-	~~[[Category: Signaling protein~~]]	+

OCA at 17:24, 29 January 2020

OCA — Wed, 29 Jan 2020 17:24:48 GMT

←Older revision		Revision as of 17:24, 29 January 2020
Line 1:		Line 1:

	==The small G protein Rap2 in a non catalytic complex with GTP==		==The small G protein Rap2 in a non catalytic complex with GTP==
-	<StructureSection load='3rap' size='340' side='right' caption='[[3rap]], [[Resolution\|resolution]] 2.20Å' scene=''>	+	<StructureSection load='3rap' size='340' side='right'caption='[[3rap]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3rap]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RAP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RAP FirstGlance]. <br>		<table><tr><td colspan='2'>[[3rap]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RAP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RAP FirstGlance]. <br>
Line 33:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Cherfils, J]]		[[Category: Cherfils, J]]
	[[Category: Menetrey, J]]		[[Category: Menetrey, J]]

OCA at 06:34, 4 April 2018

OCA — Wed, 04 Apr 2018 06:34:08 GMT

←Older revision		Revision as of 06:34, 4 April 2018
Line 13:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ra/3rap_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ra/3rap_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>
Line 37:		Line 37:
	[[Category: G protein]]		[[Category: G protein]]
	[[Category: Gtpase]]		[[Category: Gtpase]]
-	[[Category: Rap2]]
	[[Category: Ra]]		[[Category: Ra]]
		+	[[Category: Rap2]]
	[[Category: Signaling protein]]		[[Category: Signaling protein]]

OCA at 18:06, 5 August 2016

OCA — Fri, 05 Aug 2016 18:06:15 GMT

←Older revision		Revision as of 18:06, 5 August 2016
Line 1:		Line 1:
		+
	==The small G protein Rap2 in a non catalytic complex with GTP==		==The small G protein Rap2 in a non catalytic complex with GTP==
	<StructureSection load='3rap' size='340' side='right' caption='[[3rap]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='3rap' size='340' side='right' caption='[[3rap]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3rap]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Homo_sapiens Homo sapiens~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RAP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RAP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3rap]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RAP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RAP FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=3rap FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rap OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3rap RCSB], [http://www.ebi.ac.uk/pdbsum/3rap 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=3rap FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rap OCA], [http://pdbe.org/3rap PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3rap RCSB], [http://www.ebi.ac.uk/pdbsum/3rap PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3rap ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 16:		Line 17:
	<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=3rap ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 26:		Line 27:
	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 3rap" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Cherfils, J]]		[[Category: Cherfils, J]]
	[[Category: Menetrey, J]]		[[Category: Menetrey, J]]

OCA at 20:50, 25 December 2014

OCA — Thu, 25 Dec 2014 20:50:48 GMT

←Older revision		Revision as of 20:50, 25 December 2014
Line 6:		Line 6:
	<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=3rap FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rap OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3rap RCSB], [http://www.ebi.ac.uk/pdbsum/3rap 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=3rap FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rap OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3rap RCSB], [http://www.ebi.ac.uk/pdbsum/3rap PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RAP2A_HUMAN RAP2A_HUMAN]] Small GTP-binding protein which cycles between a GDP-bound inactive and a GTP-bound active form. In its active form interacts with and regulates several effectors including MAP4K4, MINK1 and TNIK. Part of a signaling complex composed of NEDD4, RAP2A and TNIK which regulates neuronal dendrite extension and arborization during development. More generally, it is part of several signaling cascades and may regulate cytoskeletal rearrangements, cell migration, cell adhesion and cell spreading.<ref>PMID:14966141</ref> <ref>PMID:15342639</ref> <ref>PMID:16246175</ref> <ref>PMID:16540189</ref> <ref>PMID:18930710</ref> <ref>PMID:20159449</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 11:07, 19 December 2014

OCA — Fri, 19 Dec 2014 11:07:23 GMT

←Older revision		Revision as of 11:07, 19 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3rap\| PDB=3rap \| SCENE= }}~~	+	==The small G protein Rap2 in a non catalytic complex with GTP==
-	===The small G protein Rap2 in a non catalytic complex with GTP===	+	<StructureSection load='3rap' size='340' side='right' caption='[[3rap]], [[Resolution\|resolution]] 2.20Å' scene=''>
-	~~{{ABSTRACT_PUBMED_10591105}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3rap]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RAP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RAP FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=3rap FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rap OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3rap RCSB], [http://www.ebi.ac.uk/pdbsum/3rap 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/ra/3rap_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 ==
		+	We report a novel crystal form of the small G protein Rap2A in complex with GTP which has no GTPase activity in the crystal. The asymmetric unit contains two complexes which show that a conserved switch I residue, Tyr 32, contributes an extra hydrogen bond to the gamma-phosphate of GTP as compared to related structures with GTP analogs. Since GTP is not hydrolyzed in the crystal, this interaction is unlikely to contribute to the intrinsic GTPase activity. The comparison of other G protein structures to the Rap2-GTP complex suggests that an equivalent interaction is likely to exist in their GTP form, whether unbound or bound to an effector. This interaction has to be released to allow the GAP-activated GTPase, and presumably the intrinsic GTPase activity as well. We also discuss the definition of the flexible regions and their hinges in the light of this structure and the expanding database of G protein structures. We propose that the switch I and switch II undergo either partial or complete disorder-to-order transitions according to their cellular status, thus defining a complex energy landscape comprising more than two conformational states. We observe in addition that the region connecting the switch I and switch II is flexible in Rap2 and other G proteins. This region may be important for protein-protein interactions and possibly behave as a conformational lever arm, as characterized for Arf. Taken together, these observations suggest that the structural mechanisms of small G proteins are significantly driven by entropy-based free energy changes.

-	~~==Function==~~	+	Structure of the small G protein Rap2 in a non-catalytic complex with GTP.,Menetrey J, Cherfils J Proteins. 1999 Nov 15;37(3):465-73. PMID:10591105<ref>PMID:10591105</ref>
-	~~[[http://www.uniprot.org/uniprot/RAP2A_HUMAN RAP2A_HUMAN]] Small GTP-binding~~ protein ~~which cycles between~~ a ~~GDP~~-~~bound inactive and a~~ GTP~~-bound active form~~. ~~In its active form interacts with and regulates several effectors including MAP4K4~~, ~~MINK1 and TNIK. Part of a signaling complex composed of NEDD4~~, ~~RAP2A and TNIK which regulates neuronal dendrite extension and arborization during development~~. ~~More generally, it is part of several signaling cascades and may regulate cytoskeletal rearrangements, cell migration, cell adhesion and cell spreading~~.~~<ref>~~PMID:~~14966141</ref> <ref>PMID:15342639</ref> <ref>PMID:16246175</ref> <ref>PMID:16540189</ref> <ref>PMID:18930710</ref>~~ <ref>PMID:~~20159449~~</ref>	+

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[3rap]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Homo_sapiens Homo sapiens]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3RAP OCA].~~	+	</div>
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	~~<ref group="xtra">PMID:010591105</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Cherfils, J.]]	+	[[Category: Cherfils, J]]
-	[[Category: Menetrey, J.]]	+	[[Category: Menetrey, J]]
	[[Category: G protein]]		[[Category: G protein]]
	[[Category: Gtpase]]		[[Category: Gtpase]]

OCA: Protected "3rap" [edit=sysop:move=sysop]

OCA — Thu, 16 May 2013 08:08:09 GMT

Protected "3rap" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:08, 16 May 2013

OCA at 08:08, 16 May 2013

OCA — Thu, 16 May 2013 08:08:02 GMT

←Older revision		Revision as of 08:08, 16 May 2013
Line 1:		Line 1:
-	{{Seed}}
-	[[Image:3rap.png\|left\|200px]]
-
-	<!--
-	The line below this paragraph, containing "STRUCTURE_3rap", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_3rap\| PDB=3rap \| SCENE= }}		{{STRUCTURE_3rap\| PDB=3rap \| SCENE= }}
-
	===The small G protein Rap2 in a non catalytic complex with GTP===		===The small G protein Rap2 in a non catalytic complex with GTP===
		+	{{ABSTRACT_PUBMED_10591105}}

-		+	==Function==
-	~~<!--~~	+	[[http://www.uniprot.org/uniprot/RAP2A_HUMAN RAP2A_HUMAN]] Small GTP-binding protein which cycles between a GDP-bound inactive and a GTP-bound active form. In its active form interacts with and regulates several effectors including MAP4K4, MINK1 and TNIK. Part of a signaling complex composed of NEDD4, RAP2A and TNIK which regulates neuronal dendrite extension and arborization during development. More generally, it is part of several signaling cascades and may regulate cytoskeletal rearrangements, cell migration, cell adhesion and cell spreading.<ref>PMID:14966141</ref> <ref>PMID:15342639</ref> <ref>PMID:16246175</ref> <ref>PMID:16540189</ref> <ref>PMID:18930710</ref> <ref>PMID:20159449</ref>
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_10591105}}, adds the Publication Abstract to the page~~	+
-	~~(as it appears on PubMed at~~ http://www.~~pubmed~~.~~gov)~~, ~~where 10591105~~ is ~~the PubMed ID number~~.	+
-	-->	+
-	~~{{ABSTRACT_PUBMED_10591105}}~~	+

	==About this Structure==		==About this Structure==
-	~~3RAP~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RAP OCA].	+	[[3rap]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RAP OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~10591105~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:010591105</ref><references group="xtra"/><references/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Cherfils, J.]]		[[Category: Cherfils, J.]]
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	[[Category: Ra]]		[[Category: Ra]]
	[[Category: Signaling protein]]		[[Category: Signaling protein]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 06:50:19 2009''

OCA at 04:50, 18 February 2009

OCA — Wed, 18 Feb 2009 04:50:21 GMT

←Older revision		Revision as of 04:50, 18 February 2009
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	==About this Structure==		==About this Structure==
-	3RAP is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RAP OCA].	+	3RAP is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RAP OCA].

	==Reference==		==Reference==
-	~~Structure of the small G protein Rap2 in a non-catalytic complex with GTP., Menetrey J, Cherfils J, Proteins. 1999 Nov 15;37(3):465-73.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/10591105 10591105]~~	+	<ref group="xtra">PMID:10591105</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Single protein]]
	[[Category: Cherfils, J.]]		[[Category: Cherfils, J.]]
	[[Category: Menetrey, J.]]		[[Category: Menetrey, J.]]
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	[[Category: Signaling protein]]		[[Category: Signaling protein]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu Jul 3 13~~:04:~~51 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 06:50:19 2009''

OCA at 10:04, 3 July 2008

OCA — Thu, 03 Jul 2008 10:04:52 GMT

←Older revision		Revision as of 10:04, 3 July 2008
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-	[[Image:3rap.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:3rap.png\|left\|200px]]

	<!--		<!--
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	{{STRUCTURE_3rap\| PDB=3rap \| SCENE= }}		{{STRUCTURE_3rap\| PDB=3rap \| SCENE= }}

-	~~'''~~The small G protein Rap2 in a non catalytic complex with GTP~~'''~~	+	===The small G protein Rap2 in a non catalytic complex with GTP===


-	~~==Overview==~~	+	<!--
-	~~We report a novel crystal form of the small G protein Rap2A in complex with GTP which has no GTPase activity in the crystal.~~ The ~~asymmetric unit contains two complexes which show that a conserved switch I residue~~, ~~Tyr 32~~, ~~contributes an extra hydrogen bond to~~ the ~~gamma-phosphate of GTP as compared~~ to ~~related structures with GTP analogs. Since GTP is not hydrolyzed in~~ the crystal, this interaction is unlikely to contribute to the intrinsic GTPase activity. The comparison of other G protein structures to the Rap2-GTP complex suggests that an equivalent interaction is likely to exist in their GTP form, whether unbound or bound to an effector. This interaction has to be released to allow the GAP-activated GTPase, and presumably the intrinsic GTPase activity as ~~well~~. ~~We also discuss the definition of the flexible regions and their hinges in the light of this structure and the expanding database of G protein structures~~. ~~We propose that the switch I and switch II undergo either partial or complete disorder-to-order transitions according to their cellular status~~, ~~thus defining a complex energy landscape comprising more than two conformational states. We observe in addition that~~ the ~~region connecting the switch I and switch II is flexible in Rap2 and other G proteins~~. ~~This region may be important for protein~~-protein interactions and possibly behave as a conformational lever arm, as characterized for Arf. Taken together, these observations suggest that the structural mechanisms of small G proteins are significantly driven by entropy-~~based free energy changes.~~	+	The line below this paragraph, {{ABSTRACT_PUBMED_10591105}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 10591105 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_10591105}}

	==About this Structure==		==About this Structure==
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	[[Category: Ra]]		[[Category: Ra]]
	[[Category: Signaling protein]]		[[Category: Signaling protein]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun May~~ ~~4 22~~:11:50 2008''	+
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