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| - | [[Image:2dyo.jpg|left|200px]]<br /><applet load="2dyo" size="350" color="white" frame="true" align="right" spinBox="true" | |
| - | caption="2dyo, resolution 1.97Å" /> | |
| - | '''The crystal structure of Saccharomyces cerevisiae Atg5- Atg16(1-57) complex'''<br /> | |
| | | | |
| - | ==Overview== | + | ==The crystal structure of Saccharomyces cerevisiae Atg5- Atg16(1-57) complex== |
| - | Atg5 is covalently modified with a ubiquitin-like modifier, Atg12, and the, Atg12-Atg5 conjugate further forms a complex with the multimeric protein, Atg16. The Atg12-Atg5.Atg16 multimeric complex plays an essential role in, autophagy, the bulk degradation system conserved in all eukaryotes. We, have reported here the crystal structure of Atg5 complexed with the, N-terminal region of Atg16 at 1.97A resolution. Atg5 comprises two, ubiquitin-like domains that flank a helix-rich domain. The N-terminal, region of Atg16 has a helical structure and is bound to the groove formed, by these three domains. In vitro analysis showed that Arg-35 and Phe-46 of, Atg16 are crucial for the interaction. Atg16, with a mutation at these, residues, failed to localize to the pre-autophagosomal structure and could, not restore autophagy in Atg16-deficient yeast strains. Furthermore, these, Atg16 mutants could not restore a severe reduction in the formation of the, Atg8-phosphatidylethanolamine conjugate, another essential factor for, autophagy, in Atg16-deficient strains under starvation conditions. These, results taken together suggest that the direct interaction between Atg5, and Atg16 is crucial to the performance of their roles in autophagy.
| + | <StructureSection load='2dyo' size='340' side='right'caption='[[2dyo]], [[Resolution|resolution]] 1.97Å' scene=''> |
| | + | == Structural highlights == |
| | + | <table><tr><td colspan='2'>[[2dyo]] is a 2 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=2DYO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DYO 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]] 1.97Å</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=2dyo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dyo OCA], [https://pdbe.org/2dyo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dyo RCSB], [https://www.ebi.ac.uk/pdbsum/2dyo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dyo ProSAT]</span></td></tr> |
| | + | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/ATG5_YEAST ATG5_YEAST] Involved in cytoplasm to vacuole transport (Cvt) and autophagy vesicles formation. Required for ATG8 association to the vesicle membranes.<ref>PMID:8921905</ref> <ref>PMID:8224160</ref> <ref>PMID:9759731</ref> <ref>PMID:10406794</ref> <ref>PMID:10712513</ref> <ref>PMID:11149920</ref> |
| | + | == 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/dy/2dyo_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=2dyo ConSurf]. |
| | + | <div style="clear:both"></div> |
| | | | |
| - | ==About this Structure== | + | ==See Also== |
| - | 2DYO is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences 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=2DYO OCA].
| + | *[[Autophagy-related protein 3D structures|Autophagy-related protein 3D structures]] |
| - | | + | == References == |
| - | ==Reference== | + | <references/> |
| - | Structure of Atg5.Atg16, a complex essential for autophagy., Matsushita M, Suzuki NN, Obara K, Fujioka Y, Ohsumi Y, Inagaki F, J Biol Chem. 2007 Mar 2;282(9):6763-72. Epub 2006 Dec 27. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=17192262 17192262]
| + | __TOC__ |
| - | [[Category: Protein complex]] | + | </StructureSection> |
| | + | [[Category: Large Structures]] |
| | [[Category: Saccharomyces cerevisiae]] | | [[Category: Saccharomyces cerevisiae]] |
| - | [[Category: Inagaki, F.]] | + | [[Category: Inagaki F]] |
| - | [[Category: Matsushita, M.]] | + | [[Category: Matsushita M]] |
| - | [[Category: Suzuki, N.N.]] | + | [[Category: Suzuki NN]] |
| - | [[Category: herix-bundle]]
| + | |
| - | [[Category: ubiquitin-fold]]
| + | |
| - | | + | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 23 14:37:24 2008''
| + | |
| Structural highlights
Function
ATG5_YEAST Involved in cytoplasm to vacuole transport (Cvt) and autophagy vesicles formation. Required for ATG8 association to the vesicle membranes.[1] [2] [3] [4] [5] [6]
Evolutionary Conservation
Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.
See Also
References
- ↑ Kametaka S, Matsuura A, Wada Y, Ohsumi Y. Structural and functional analyses of APG5, a gene involved in autophagy in yeast. Gene. 1996 Oct 31;178(1-2):139-43. PMID:8921905
- ↑ Tsukada M, Ohsumi Y. Isolation and characterization of autophagy-defective mutants of Saccharomyces cerevisiae. FEBS Lett. 1993 Oct 25;333(1-2):169-74. PMID:8224160
- ↑ Mizushima N, Noda T, Yoshimori T, Tanaka Y, Ishii T, George MD, Klionsky DJ, Ohsumi M, Ohsumi Y. A protein conjugation system essential for autophagy. Nature. 1998 Sep 24;395(6700):395-8. PMID:9759731 doi:10.1038/26506
- ↑ Mizushima N, Noda T, Ohsumi Y. Apg16p is required for the function of the Apg12p-Apg5p conjugate in the yeast autophagy pathway. EMBO J. 1999 Jul 15;18(14):3888-96. PMID:10406794 doi:10.1093/emboj/18.14.3888
- ↑ George MD, Baba M, Scott SV, Mizushima N, Garrison BS, Ohsumi Y, Klionsky DJ. Apg5p functions in the sequestration step in the cytoplasm-to-vacuole targeting and macroautophagy pathways. Mol Biol Cell. 2000 Mar;11(3):969-82. PMID:10712513
- ↑ Kim J, Huang WP, Klionsky DJ. Membrane recruitment of Aut7p in the autophagy and cytoplasm to vacuole targeting pathways requires Aut1p, Aut2p, and the autophagy conjugation complex. J Cell Biol. 2001 Jan 8;152(1):51-64. PMID:11149920
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