2efc: Difference between revisions

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[[Image:2efc.jpg|left|200px]]


{{Structure
==Ara7-GDP/AtVps9a==
|PDB= 2efc |SIZE=350|CAPTION= <scene name='initialview01'>2efc</scene>, resolution 2.09&Aring;
<StructureSection load='2efc' size='340' side='right'caption='[[2efc]], [[Resolution|resolution]] 2.09&Aring;' scene=''>
|SITE= <scene name='pdbsite=AC1:Gdp+Binding+Site+For+Residue+B+1200'>AC1</scene> and <scene name='pdbsite=AC2:Gdp+Binding+Site+For+Residue+D+2200'>AC2</scene>
== Structural highlights ==
|LIGAND= <scene name='pdbligand=GDP:GUANOSINE-5'-DIPHOSPHATE'>GDP</scene>
<table><tr><td colspan='2'>[[2efc]] is a 4 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=2EFC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2EFC FirstGlance]. <br>
|ACTIVITY=  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.09&#8491;</td></tr>
|GENE=  
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</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=2efc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2efc OCA], [https://pdbe.org/2efc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2efc RCSB], [https://www.ebi.ac.uk/pdbsum/2efc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2efc ProSAT]</span></td></tr>
 
</table>
'''Ara7-GDP/AtVps9a'''
== Function ==
 
[https://www.uniprot.org/uniprot/VPS9A_ARATH VPS9A_ARATH] Functions as guanine nucleotide exchange factor (GEF) for Rab small GTPases. Activates specifically RABF1, RABF2A and RABF2B proteins. Required for early stages of embryogenesis, cytokinesis, embryogenesis, and organ development. Is essential for the establishment or maintenance of the polar localization of the auxin efflux carrier PIN1.<ref>PMID:18055610</ref> <ref>PMID:20833725</ref>
 
== Evolutionary Conservation ==
==About this Structure==
[[Image:Consurf_key_small.gif|200px|right]]
2EFC is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EFC OCA].  
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ef/2efc_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/main_output.php?pdb_ID=2efc ConSurf].
<div style="clear:both"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Arabidopsis thaliana]]
[[Category: Arabidopsis thaliana]]
[[Category: Protein complex]]
[[Category: Large Structures]]
[[Category: Goh, T.]]
[[Category: Goh T]]
[[Category: Ihara, K.]]
[[Category: Ihara K]]
[[Category: Ito, E.]]
[[Category: Ito E]]
[[Category: Nakano, A.]]
[[Category: Nakano A]]
[[Category: Sunada, M.]]
[[Category: Sunada M]]
[[Category: Ueda, T.]]
[[Category: Ueda T]]
[[Category: Uejima, T.]]
[[Category: Uejima T]]
[[Category: Wakatsuki, S.]]
[[Category: Wakatsuki S]]
[[Category: GDP]]
[[Category: gef]]
[[Category: gtpase]]
[[Category: nucleotide]]
[[Category: rab5]]
[[Category: transport protein]]
[[Category: vps9]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 16:39:20 2008''

Latest revision as of 16:49, 13 March 2024

Ara7-GDP/AtVps9aAra7-GDP/AtVps9a

Structural highlights

2efc is a 4 chain structure with sequence from Arabidopsis thaliana. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.09Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

VPS9A_ARATH Functions as guanine nucleotide exchange factor (GEF) for Rab small GTPases. Activates specifically RABF1, RABF2A and RABF2B proteins. Required for early stages of embryogenesis, cytokinesis, embryogenesis, and organ development. Is essential for the establishment or maintenance of the polar localization of the auxin efflux carrier PIN1.[1] [2]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

References

  1. ↑ Goh T, Uchida W, Arakawa S, Ito E, Dainobu T, Ebine K, Takeuchi M, Sato K, Ueda T, Nakano A. VPS9a, the common activator for two distinct types of Rab5 GTPases, is essential for the development of Arabidopsis thaliana. Plant Cell. 2007 Nov;19(11):3504-15. Epub 2007 Nov 30. PMID:18055610 doi:10.1105/tpc.107.053876
  2. ↑ Uejima T, Ihara K, Goh T, Ito E, Sunada M, Ueda T, Nakano A, Wakatsuki S. GDP-bound and nucleotide-free intermediates of the guanine nucleotide exchange in the Rab5.Vps9 system. J Biol Chem. 2010 Nov 19;285(47):36689-97. Epub 2010 Sep 10. PMID:20833725 doi:10.1074/jbc.M110.152132

2efc, resolution 2.09Å

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