1ky2: Difference between revisions

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{{Seed}}
[[Image:1ky2.png|left|200px]]


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==GPPNHP-BOUND YPT7P AT 1.6 A RESOLUTION==
The line below this paragraph, containing "STRUCTURE_1ky2", creates the "Structure Box" on the page.
<StructureSection load='1ky2' size='340' side='right'caption='[[1ky2]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[1ky2]] 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=1KY2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KY2 FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.6&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
{{STRUCTURE_1ky2|  PDB=1ky2  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ky2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ky2 OCA], [https://pdbe.org/1ky2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ky2 RCSB], [https://www.ebi.ac.uk/pdbsum/1ky2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ky2 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/1ky2_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=1ky2 ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
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.


===GPPNHP-BOUND YPT7P AT 1.6 A RESOLUTION===
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:11937061<ref>PMID:11937061</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 1ky2" style="background-color:#fffaf0;"></div>


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==See Also==
The line below this paragraph, {{ABSTRACT_PUBMED_11937061}}, adds the Publication Abstract to the page
*[[GTP-binding protein 3D structures|GTP-binding protein 3D structures]]
(as it appears on PubMed at http://www.pubmed.gov), where 11937061 is the PubMed ID number.
== References ==
-->
<references/>
{{ABSTRACT_PUBMED_11937061}}
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</StructureSection>
==About this Structure==
[[Category: Large Structures]]
1KY2 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KY2 OCA].
 
==Reference==
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://www.ncbi.nlm.nih.gov/pubmed/11937061 11937061]
[[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: Endocytosis]]
[[Category: G protein]]
[[Category: Gtp hydrolysis]]
[[Category: Hydrolase]]
[[Category: Vesicular traffic]]
[[Category: Ypt/rab protein]]
 
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Retrieved from "https://proteopedia.org/1ky2"