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[[Image:1ky3.jpg|left|200px]]<br /><applet load="1ky3" size="350" color="white" frame="true" align="right" spinBox="true"
caption="1ky3, resolution 1.35&Aring;" />
'''GDP-BOUND YPT7P AT 1.35 A RESOLUTION'''<br />


==Overview==
==GDP-BOUND YPT7P AT 1.35 A RESOLUTION==
The GTPase Ypt7p from S. cerevisiae is involved in late endosome-to-vacuole transport and homotypic vacuole fusion. We present crystal structures of the GDP- and GppNHp-bound conformation of Ypt7p solved at 1.35 and 1.6 A resolution, respectively. Despite the similarity of the overall structure to other Ypt/Rab proteins, Ypt7p displays small but significant differences. The Ypt7p-specific residues Tyr33 and Tyr37 cause a difference in the main chain trace of the RabSF2 region and form a characteristic surface epitope. Ypt7p*GppNHp does not display the helix alpha2, characteristic of the Ras-superfamily, but instead possess an extended loop L4/L5. Due to insertions in loops L3 and L7, the neighboring RabSF1 and RabSF4 regions are different in their conformations to those of other Ypt/Rab proteins.
<StructureSection load='1ky3' size='340' side='right'caption='[[1ky3]], [[Resolution|resolution]] 1.35&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1ky3]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KY3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KY3 FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.35&#8491;</td></tr>
<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>, <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=1ky3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ky3 OCA], [https://pdbe.org/1ky3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ky3 RCSB], [https://www.ebi.ac.uk/pdbsum/1ky3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ky3 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/YPT7_YEAST YPT7_YEAST] Needed for homotypic vacuole fusion, the last step in the vacuole inheritance process.
== 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/ky/1ky3_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=1ky3 ConSurf].
<div style="clear:both"></div>


==About this Structure==
==See Also==
1KY3 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae] with <scene name='pdbligand=MG:'>MG</scene> and <scene name='pdbligand=GDP:'>GDP</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KY3 OCA].
*[[GTP-binding protein 3D structures|GTP-binding protein 3D structures]]
 
__TOC__
==Reference==
</StructureSection>
Rab-subfamily-specific regions of Ypt7p are structurally different from other RabGTPases., Constantinescu AT, Rak A, Alexandrov K, Esters H, Goody RS, Scheidig AJ, Structure. 2002 Apr;10(4):569-79. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11937061 11937061]
[[Category: Large Structures]]
[[Category: Saccharomyces cerevisiae]]
[[Category: Saccharomyces cerevisiae]]
[[Category: Single protein]]
[[Category: Constantinescu A-T]]
[[Category: Constantinescu, A T.]]
[[Category: Rak A]]
[[Category: Rak, A.]]
[[Category: Scheidig AJ]]
[[Category: Scheidig, A J.]]
[[Category: GDP]]
[[Category: MG]]
[[Category: endocytosis]]
[[Category: g protein]]
[[Category: gtp hydrolysis]]
[[Category: hydrolase]]
[[Category: vesicular traffic]]
[[Category: ypt/rab protein]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 13:39:11 2008''

Latest revision as of 10:28, 14 February 2024

GDP-BOUND YPT7P AT 1.35 A RESOLUTIONGDP-BOUND YPT7P AT 1.35 A RESOLUTION

Structural highlights

1ky3 is a 1 chain structure with sequence from Saccharomyces cerevisiae. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.35Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

YPT7_YEAST Needed for homotypic vacuole fusion, the last step in the vacuole inheritance process.

Evolutionary Conservation

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

See Also

1ky3, resolution 1.35Å

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