1n6o - Revision history

OCA at 08:46, 10 April 2024

2024-04-10T08:46:42Z

←Older revision		Revision as of 08:46, 10 April 2024
Line 3:		Line 3:
	<StructureSection load='1n6o' size='340' side='right'caption='[[1n6o]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1n6o' size='340' side='right'caption='[[1n6o]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1n6o]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1N6O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1N6O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1n6o]] is a 1 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=1N6O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1N6O FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</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]] 1.8Å</td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1n6h\|1n6h]], [[1n6i\|1n6i]], [[1n6k\|1n6k]], [[1n6l\|1n6l]], [[1n6n\|1n6n]], [[1n6p\|1n6p]], [[1n6r\|1n6r]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</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=1n6o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1n6o OCA], [https://pdbe.org/1n6o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1n6o RCSB], [https://www.ebi.ac.uk/pdbsum/1n6o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1n6o 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=1n6o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1n6o OCA], [https://pdbe.org/1n6o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1n6o RCSB], [https://www.ebi.ac.uk/pdbsum/1n6o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1n6o ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/RAB5A_HUMAN RAB5A_HUMAN]] Required for the fusion of plasma membranes and early endosomes. Contributes to the regulation of filopodia extension.<ref>PMID:14978216</ref>	+	[https://www.uniprot.org/uniprot/RAB5A_HUMAN RAB5A_HUMAN] Required for the fusion of plasma membranes and early endosomes. Contributes to the regulation of filopodia extension.<ref>PMID:14978216</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 20:		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=1n6o 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=1n6o ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	GTPase domain crystal structures of Rab5a wild type and five variants with mutations in the phosphate-binding loop are reported here at resolutions up to 1.5 A. Of particular interest, the A30P mutant was crystallized in complexes with GDP, GDP+AlF(3), and authentic GTP, respectively. The other variant crystals were obtained in complexes with a non-hydrolyzable GTP analog, GppNHp. All structures were solved in the same crystal form, providing an unusual opportunity to compare structures of small GTPases with different catalytic rates. The A30P mutant exhibits dramatically reduced GTPase activity and forms a GTP-bound complex stable enough for crystallographic analysis. Importantly, the A30P structure with bound GDP plus AlF(3) has been solved in the absence of a GTPase-activating protein, and it may resemble that of a transition state intermediate. Conformational changes are observed between the GTP-bound form and the transition state intermediate, mainly in the switch II region containing the catalytic Gln(79) residue and independent of A30P mutation-induced local alterations in the P-loop. The structures suggest an important catalytic role for a P-loop backbone amide group, which is eliminated in the A30P mutant, and support the notion that the transition state of GTPase-mediated GTP hydrolysis is of considerable dissociative character.

-	High resolution crystal structures of human Rab5a and five mutants with substitutions in the catalytically important phosphate-binding loop.,Zhu G, Liu J, Terzyan S, Zhai P, Li G, Zhang XC J Biol Chem. 2003 Jan 24;278(4):2452-60. Epub 2002 Nov 13. PMID:12433916<ref>PMID:12433916</ref>	+	==See Also==
-		+	*[[Ras-related protein Rab 3D structures\|Ras-related protein Rab 3D structures]]
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class~~=~~"pdbe-citations 1n6o" 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: Li, G]]	+	[[Category: Li G]]
-	[[Category: Liu, J]]	+	[[Category: Liu J]]
-	[[Category: Terzyan, S]]	+	[[Category: Terzyan S]]
-	[[Category: Zhai, P]]	+	[[Category: Zhai P]]
-	[[Category: Zhang~~, X C~~]]	+	[[Category: Zhang XC]]
-	[[Category: Zhu, G]]	+	[[Category: Zhu G]]
-	~~[[Category: Gtpase]]~~	+
-	~~[[Category: Protein transport]]~~	+
-	~~[[Category: Rab~~]]	+

OCA at 09:33, 5 May 2021

2021-05-05T09:33:01Z

←Older revision		Revision as of 09:33, 5 May 2021
Line 3:		Line 3:
	<StructureSection load='1n6o' size='340' side='right'caption='[[1n6o]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1n6o' size='340' side='right'caption='[[1n6o]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1n6o]] is a 1 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=1N6O OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1N6O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1n6o]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1N6O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1N6O FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</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" id="ligandDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1n6h\|1n6h]], [[1n6i\|1n6i]], [[1n6k\|1n6k]], [[1n6l\|1n6l]], [[1n6n\|1n6n]], [[1n6p\|1n6p]], [[1n6r\|1n6r]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1n6h\|1n6h]], [[1n6i\|1n6i]], [[1n6k\|1n6k]], [[1n6l\|1n6l]], [[1n6n\|1n6n]], [[1n6p\|1n6p]], [[1n6r\|1n6r]]</div></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=1n6o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1n6o OCA], [~~http~~://pdbe.org/1n6o PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1n6o RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1n6o PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1n6o 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=1n6o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1n6o OCA], [https://pdbe.org/1n6o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1n6o RCSB], [https://www.ebi.ac.uk/pdbsum/1n6o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1n6o ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/RAB5A_HUMAN RAB5A_HUMAN]] Required for the fusion of plasma membranes and early endosomes. Contributes to the regulation of filopodia extension.<ref>PMID:14978216</ref>	+	[[https://www.uniprot.org/uniprot/RAB5A_HUMAN RAB5A_HUMAN]] Required for the fusion of plasma membranes and early endosomes. Contributes to the regulation of filopodia extension.<ref>PMID:14978216</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 07:42, 31 July 2019

2019-07-31T07:42:56Z

←Older revision		Revision as of 07:42, 31 July 2019
Line 1:		Line 1:

	==Crystal Structure of Human Rab5a A30K mutant complex with GppNHp==		==Crystal Structure of Human Rab5a A30K mutant complex with GppNHp==
-	<StructureSection load='1n6o' size='340' side='right' caption='[[1n6o]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='1n6o' size='340' side='right'caption='[[1n6o]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1n6o]] is a 1 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=1N6O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1N6O FirstGlance]. <br>		<table><tr><td colspan='2'>[[1n6o]] is a 1 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=1N6O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1N6O FirstGlance]. <br>
Line 14:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/n6/1n6o_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/n6/1n6o_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 34:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Li, G]]		[[Category: Li, G]]
	[[Category: Liu, J]]		[[Category: Liu, J]]

OCA at 10:07, 25 October 2017

2017-10-25T10:07:52Z

←Older revision		Revision as of 10:07, 25 October 2017
Line 1:		Line 1:
		+
	==Crystal Structure of Human Rab5a A30K mutant complex with GppNHp==		==Crystal Structure of Human Rab5a A30K mutant complex with GppNHp==
	<StructureSection load='1n6o' size='340' side='right' caption='[[1n6o]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1n6o' size='340' side='right' caption='[[1n6o]], [[Resolution\|resolution]] 1.80Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</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=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1n6h\|1n6h]], [[1n6i\|1n6i]], [[1n6k\|1n6k]], [[1n6l\|1n6l]], [[1n6n\|1n6n]], [[1n6p\|1n6p]], [[1n6r\|1n6r]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1n6h\|1n6h]], [[1n6i\|1n6i]], [[1n6k\|1n6k]], [[1n6l\|1n6l]], [[1n6n\|1n6n]], [[1n6p\|1n6p]], [[1n6r\|1n6r]]</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=1n6o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1n6o OCA], [http://pdbe.org/1n6o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1n6o RCSB], [http://www.ebi.ac.uk/pdbsum/1n6o 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=1n6o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1n6o OCA], [http://pdbe.org/1n6o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1n6o RCSB], [http://www.ebi.ac.uk/pdbsum/1n6o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1n6o ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		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=1n6o ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 01:42, 12 September 2015

2015-09-12T01:42:03Z

←Older revision		Revision as of 01:42, 12 September 2015
Line 2:		Line 2:
	<StructureSection load='1n6o' size='340' side='right' caption='[[1n6o]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1n6o' size='340' side='right' caption='[[1n6o]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1n6o]] is a 1 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=1N6O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1N6O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1n6o]] is a 1 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=1N6O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1N6O FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</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=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1n6h\|1n6h]], [[1n6i\|1n6i]], [[1n6k\|1n6k]], [[1n6l\|1n6l]], [[1n6n\|1n6n]], [[1n6p\|1n6p]], [[1n6r\|1n6r]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1n6h\|1n6h]], [[1n6i\|1n6i]], [[1n6k\|1n6k]], [[1n6l\|1n6l]], [[1n6n\|1n6n]], [[1n6p\|1n6p]], [[1n6r\|1n6r]]</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=1n6o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1n6o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1n6o RCSB], [http://www.ebi.ac.uk/pdbsum/1n6o 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=1n6o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1n6o OCA], [http://pdbe.org/1n6o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1n6o RCSB], [http://www.ebi.ac.uk/pdbsum/1n6o PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 27:		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 1n6o" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Li, G]]		[[Category: Li, G]]
	[[Category: Liu, J]]		[[Category: Liu, J]]

OCA at 22:08, 25 December 2014

2014-12-25T22:08:59Z

←Older revision		Revision as of 22:08, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1n6o]] is a 1 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=1N6O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1N6O FirstGlance]. <br>		<table><tr><td colspan='2'>[[1n6o]] is a 1 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=1N6O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1N6O FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1n6h\|1n6h]], [[1n6i\|1n6i]], [[1n6k\|1n6k]], [[1n6l\|1n6l]], [[1n6n\|1n6n]], [[1n6p\|1n6p]], [[1n6r\|1n6r]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1n6h\|1n6h]], [[1n6i\|1n6i]], [[1n6k\|1n6k]], [[1n6l\|1n6l]], [[1n6n\|1n6n]], [[1n6p\|1n6p]], [[1n6r\|1n6r]]</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=1n6o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1n6o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1n6o RCSB], [http://www.ebi.ac.uk/pdbsum/1n6o 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=1n6o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1n6o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1n6o RCSB], [http://www.ebi.ac.uk/pdbsum/1n6o PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RAB5A_HUMAN RAB5A_HUMAN]] Required for the fusion of plasma membranes and early endosomes. Contributes to the regulation of filopodia extension.<ref>PMID:14978216</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 30:		Line 32:
	</StructureSection>		</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Li, G.]]	+	[[Category: Li, G]]
-	[[Category: Liu, J.]]	+	[[Category: Liu, J]]
-	[[Category: Terzyan, S.]]	+	[[Category: Terzyan, S]]
-	[[Category: Zhai, P.]]	+	[[Category: Zhai, P]]
-	[[Category: Zhang, X C.]]	+	[[Category: Zhang, X C]]
-	[[Category: Zhu, G.]]	+	[[Category: Zhu, G]]
	[[Category: Gtpase]]		[[Category: Gtpase]]
	[[Category: Protein transport]]		[[Category: Protein transport]]
	[[Category: Rab]]		[[Category: Rab]]

OCA at 17:04, 28 September 2014

2014-09-28T17:04:13Z

←Older revision		Revision as of 17:04, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1n6o.~~png~~\|~~left~~\|200px]]	+	==Crystal Structure of Human Rab5a A30K mutant complex with GppNHp==
		+	<StructureSection load='1n6o' size='340' side='right' caption='[[1n6o]], [[Resolution\|resolution]] 1.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1n6o]] is a 1 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=1N6O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1N6O FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1n6h\|1n6h]], [[1n6i\|1n6i]], [[1n6k\|1n6k]], [[1n6l\|1n6l]], [[1n6n\|1n6n]], [[1n6p\|1n6p]], [[1n6r\|1n6r]]</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=1n6o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1n6o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1n6o RCSB], [http://www.ebi.ac.uk/pdbsum/1n6o 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/n6/1n6o_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 ==
		+	GTPase domain crystal structures of Rab5a wild type and five variants with mutations in the phosphate-binding loop are reported here at resolutions up to 1.5 A. Of particular interest, the A30P mutant was crystallized in complexes with GDP, GDP+AlF(3), and authentic GTP, respectively. The other variant crystals were obtained in complexes with a non-hydrolyzable GTP analog, GppNHp. All structures were solved in the same crystal form, providing an unusual opportunity to compare structures of small GTPases with different catalytic rates. The A30P mutant exhibits dramatically reduced GTPase activity and forms a GTP-bound complex stable enough for crystallographic analysis. Importantly, the A30P structure with bound GDP plus AlF(3) has been solved in the absence of a GTPase-activating protein, and it may resemble that of a transition state intermediate. Conformational changes are observed between the GTP-bound form and the transition state intermediate, mainly in the switch II region containing the catalytic Gln(79) residue and independent of A30P mutation-induced local alterations in the P-loop. The structures suggest an important catalytic role for a P-loop backbone amide group, which is eliminated in the A30P mutant, and support the notion that the transition state of GTPase-mediated GTP hydrolysis is of considerable dissociative character.

-	~~{{STRUCTURE_1n6o\| PDB=1n6o \| SCENE= }}~~	+	High resolution crystal structures of human Rab5a and five mutants with substitutions in the catalytically important phosphate-binding loop.,Zhu G, Liu J, Terzyan S, Zhai P, Li G, Zhang XC J Biol Chem. 2003 Jan 24;278(4):2452-60. Epub 2002 Nov 13. PMID:12433916<ref>PMID:12433916</ref>

-	~~===Crystal Structure~~ of ~~Human Rab5a A30K mutant complex with GppNHp===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_12433916}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1n6o]] is a 1 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=1N6O OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:012433916<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Li, G.]]		[[Category: Li, G.]]

OCA: Protected "1n6o" [edit=sysop:move=sysop]

2012-12-05T20:07:26Z

Protected "1n6o" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:07, 5 December 2012

OCA at 20:07, 5 December 2012

2012-12-05T20:07:23Z

←Older revision		Revision as of 20:07, 5 December 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1n6o.png\|left\|200px]]		[[Image:1n6o.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1n6o", 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_1n6o\| PDB=1n6o \| SCENE= }}		{{STRUCTURE_1n6o\| PDB=1n6o \| SCENE= }}

	===Crystal Structure of Human Rab5a A30K mutant complex with GppNHp===		===Crystal Structure of Human Rab5a A30K mutant complex with GppNHp===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_12433916}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 12433916 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_12433916}}		{{ABSTRACT_PUBMED_12433916}}

	==About this Structure==		==About this Structure==
-	~~1N6O~~ is a 1 chain 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=1N6O OCA].	+	[[1n6o]] is a 1 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=1N6O OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~12433916~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:012433916</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Li, G.]]		[[Category: Li, G.]]
Line 32:		Line 20:
	[[Category: Zhu, G.]]		[[Category: Zhu, G.]]
	[[Category: Gtpase]]		[[Category: Gtpase]]
		+	[[Category: Protein transport]]
	[[Category: Rab]]		[[Category: Rab]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 09:22:19 2009''

OCA at 07:22, 18 February 2009

2009-02-18T07:22:20Z

←Older revision		Revision as of 07:22, 18 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	1N6O 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=1N6O OCA].	+	1N6O is a 1 chain 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=1N6O OCA].

	==Reference==		==Reference==
-	High resolution crystal structures of human Rab5a and five mutants with substitutions in the catalytically important phosphate-binding loop., Zhu G, Liu J, Terzyan S, Zhai P, Li G, Zhang XC, J Biol Chem. 2003 Jan 24;278(4):2452-60. Epub 2002 Nov 13. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/12433916 12433916]~~	+	<ref group="xtra">PMID:12433916</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Single protein]]
	[[Category: Li, G.]]		[[Category: Li, G.]]
	[[Category: Liu, J.]]		[[Category: Liu, J.]]
Line 35:		Line 34:
	[[Category: Rab]]		[[Category: Rab]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Tue Jul 29 15~~:37:~~13 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 09:22:19 2009''