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Yorodumi- SASDC73: Atg1-Atg13-Atg17-Atg31-Atg29 Minipentamer Complex (Serine/threoni... -
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-Basic information
Entry | Database: SASBDB / ID: SASDC73 |
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Sample | Atg1-Atg13-Atg17-Atg31-Atg29 Minipentamer Complex
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Function / homology | Function and homology information positive regulation of autophagosome size / : / autophagy of peroxisome / Cvt vesicle assembly / : / phagophore / vacuole-isolation membrane contact site / protein targeting to vacuole involved in autophagy / Atg1/ULK1 kinase complex / cytoplasm to vacuole targeting by the Cvt pathway ...positive regulation of autophagosome size / : / autophagy of peroxisome / Cvt vesicle assembly / : / phagophore / vacuole-isolation membrane contact site / protein targeting to vacuole involved in autophagy / Atg1/ULK1 kinase complex / cytoplasm to vacuole targeting by the Cvt pathway / positive regulation of autophagosome assembly / autophagy of mitochondrion / protein localization to phagophore assembly site / phagophore assembly site membrane / piecemeal microautophagy of the nucleus / protein kinase regulator activity / phagophore assembly site / reticulophagy / extrinsic component of membrane / activation of protein kinase activity / protein kinase activator activity / autophagosome assembly / SNARE binding / autophagy / protein transport / molecular adaptor activity / non-specific serine/threonine protein kinase / protein phosphorylation / protein serine kinase activity / protein serine/threonine kinase activity / ATP binding / cytosol Similarity search - Function |
Biological species | Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (yeast) |
Citation | Journal: Structure / Year: 2015 Title: Solution structure of the Atg1 complex: implications for the architecture of the phagophore assembly site. Authors: Jürgen Köfinger / Michael J Ragusa / Il-Hyung Lee / Gerhard Hummer / James H Hurley / Abstract: The biogenesis of autophagosomes commences at the phagophore assembly site (PAS), a protein-vesicle ultrastructure that is organized by the Atg1 complex. The Atg1 complex consists of the Atg1 ...The biogenesis of autophagosomes commences at the phagophore assembly site (PAS), a protein-vesicle ultrastructure that is organized by the Atg1 complex. The Atg1 complex consists of the Atg1 protein kinase, the intrinsically disordered region-rich Atg13, and the dimeric double crescent-shaped Atg17-Atg31-Atg29 subcomplex. We show that the PAS contains a relatively uniform ∼28 copies of Atg17, and upon autophagy induction, similar numbers of Atg1 and Atg13 molecules. We then apply ensemble refinement of small-angle X-ray scattering to determine the solution structures of the Atg1-Atg13 and Atg17-Atg31-Atg29 subcomplexes and the Atg1 complex, using a trimmed minipentamer tractable to biophysical studies. We observe tetramers of Atg1 pentamers that assemble via Atg17-Atg31-Atg29. This leads to a model for the higher organization of the Atg1 complex in PAS scaffolding. |
Contact author |
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-Structure visualization
-Downloads & links
-Data source
SASBDB page | SASDC73 |
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-Related structure data
Related structure data | C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-External links
Related items in Molecule of the Month |
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-Models
-Sample
Sample | Name: Atg1-Atg13-Atg17-Atg31-Atg29 Minipentamer Complex / Specimen concentration: 0.70-2.60 / Entity id: 633 / 634 / 635 / 636 / 637 |
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Buffer | Name: 20 mM Tris, 200 mM NaCl / pH: 8 |
Entity #633 | Name: Atg1 / Type: protein / Description: Serine/threonine-protein kinase ATG1 / Formula weight: 30.664 / Num. of mol.: 2 Source: Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) References: UniProt: Q6CSX2 Sequence: DSNITPAVES LAAKAFVMYS FAEMKFSQIL PTPPSSTDYD PLSDKRLSNG SCAIEDEEDL DQGRPPSNQT LTSATTKISS ATNVDTQIPA PELKKLCTES LLLYLKALTI LAASMKLTSK WWYENESKNC TLKLNILVQW IRDRFNECLD KAEFLRLKLH AINTSPNSQW ...Sequence: DSNITPAVES LAAKAFVMYS FAEMKFSQIL PTPPSSTDYD PLSDKRLSNG SCAIEDEEDL DQGRPPSNQT LTSATTKISS ATNVDTQIPA PELKKLCTES LLLYLKALTI LAASMKLTSK WWYENESKNC TLKLNILVQW IRDRFNECLD KAEFLRLKLH AINTSPNSQW SDDDPVIFVE KLIYDRALDI SRNAARMEME SGNYNTCELA YATSLWMLEI LLDENFQFNE VYDDEYASNI TSLDESDKEM IKKYISSIAN RLKALKSKMV |
Entity #634 | Name: Atg13 / Type: protein / Description: Autophagy-related protein 13 / Formula weight: 8.726 / Num. of mol.: 2 Source: Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) References: UniProt: Q6CWK2 Sequence: FDRTAKPRKS TENPPEDLLE FVKLLEDKKE LNMKPNTILP QQDISNSLMR FQSMKSNNDA LSDNLSMSMS IDQPNV |
Entity #635 | Name: Atg17 / Type: protein / Description: Autophagy-related protein 17 / Formula weight: 49.864 / Num. of mol.: 2 Source: Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) References: UniProt: Q6CS99 Sequence: MSDAATTIPS DEIDKLWNKA RNQLVEAQVE CEESLKILSK VRTEMDSSQK SRFKLKFILN CLVNQVEFFK NIMLEKCIST ELIDNEWSKL VLVEIVNDVS YWQNEITTKM KILQGTKYDL TDDHSSLSDF ICMDHVDILQ QKIDEIPIIK QQVTNIRQHY KSIKDRIENQ ...Sequence: MSDAATTIPS DEIDKLWNKA RNQLVEAQVE CEESLKILSK VRTEMDSSQK SRFKLKFILN CLVNQVEFFK NIMLEKCIST ELIDNEWSKL VLVEIVNDVS YWQNEITTKM KILQGTKYDL TDDHSSLSDF ICMDHVDILQ QKIDEIPIIK QQVTNIRQHY KSIKDRIENQ LVAVKLKKLR TYFDSHFSRD SKNNLFKLLE SDYVTELNEF ENELADFLRS ITDHFDKCTI LKEQQIPLPD LKELFQIVKK DDTQLENIRE LVFETGLEVK AFSKKVNETI SEIMDKIGGF HLLASKIVTE LEKCEEYLSI FQKIANLVFV YKESCIKKIE QVQQLCEFYD KFKLGYKNLL RERDRRKATA LQMEKILKEC QEKLQALSDA DLDQRQQFLL ENGDYLPENI WPGYIDDMES MYSFEYSIHN VPN |
Entity #636 | Type: protein / Description: Autophagy-related protein 29 / Formula weight: 10.031 / Num. of mol.: 2 Source: Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) References: UniProt: Q6CTU8 Sequence: MNNDNTKVYV RVAGKRPENF VETKPFIWDS RRDKILWTKI SKIDSLEDMD WQELGADLGA PEPFLKKRSY TLFQNQLKVL SNQID |
Entity #637 | Name: Atg31 / Type: protein / Description: KLLA0A10637p / Formula weight: 16.071 / Num. of mol.: 2 Source: Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) References: UniProt: Q6CX74 Sequence: MESPVLLVKN ANAATNASNL GLLGQKQNSY TVDENTWFLN NISFIFEDDD PSQHDEDQLD YENVIIIDSE PSGTVNNVEM LSERWQLLAF DQNPRDNCIS LTVMNELSAD LGQNTDISGL DNLSKLYHER NAQIRKLLDS IAP |
-Experimental information
Beam | Instrument name: Advanced Light Source (ALS) 12.3.1 (SIBYLS) City: Berkeley, CA / 国: USA / Type of source: X-ray synchrotron | ||||||||||||||||||||||||
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Detector | Name: Pilatus3 X 2M / Pixsize x: 172 mm | ||||||||||||||||||||||||
Scan | Title: Atg1-Atg13-Atg17-Atg31-Atg29 Minipentamer Complex / Measurement date: Dec 20, 2013 / Storage temperature: 10 °C / Cell temperature: 22 °C / Exposure time: 0.6 sec. / Unit: 1/A /
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Distance distribution function P(R) | Sofotware P(R): GNOM 4.5a / Number of points: 260 /
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Result | Experimental MW: 234 kDa / Type of curve: single_conc
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