메뉴 건너뛰기




Volumn 11, Issue 9, 2015, Pages 1580-1593

Structure of yeast Ape1 and its role in autophagic vesicle formation

Author keywords

Ape1; Atg19; Autophagy; Cvt; X ray crystallography

Indexed keywords

AMINOPEPTIDASE I; FUNGAL ENZYME; UNCLASSIFIED DRUG; YEAST AMINOPEPTIDASE I; AMINOPEPTIDASE; APE1 PROTEIN, S CEREVISIAE; HYBRID PROTEIN; PEPTIDE; SACCHAROMYCES CEREVISIAE PROTEIN;

EID: 84953888250     PISSN: 15548627     EISSN: 15548635     Source Type: Journal    
DOI: 10.1080/15548627.2015.1067363     Document Type: Article
Times cited : (15)

References (47)
  • 1
    • 34249937267 scopus 로고    scopus 로고
    • Beta-amyloid is a substrate of autophagy in sporadic inclusion body myositis
    • PMID:17469125
    • Lunemann JD, Schmidt J, Schmid D, Barthel K, Wrede A, Dalakas MC, Münz C. Beta-amyloid is a substrate of autophagy in sporadic inclusion body myositis. Ann Neurol 2007; 61:476-83; PMID:17469125; http://dx.doi.org/10.1002/ana.21115
    • (2007) Ann Neurol , vol.61 , pp. 476-483
    • Lunemann, J.D.1    Schmidt, J.2    Schmid, D.3    Barthel, K.4    Wrede, A.5    Dalakas, M.C.6    Münz, C.7
  • 2
    • 77951750296 scopus 로고    scopus 로고
    • Selective autophagy in cancer development and therapy
    • PMID:20424122
    • Dikic I, Johansen T, Kirkin V. Selective autophagy in cancer development and therapy. Cancer Res 2010; 70:3431-4; PMID:20424122; http://dx.doi.org/10.1158/0008-5472.CAN-09-4027
    • (2010) Cancer Res , vol.70 , pp. 3431-3434
    • Dikic, I.1    Johansen, T.2    Kirkin, V.3
  • 3
    • 84901815187 scopus 로고    scopus 로고
    • Cargo recognition and trafficking in selective autophagy
    • PMID:24875736
    • Stolz A, Ernst A, Dikic I. Cargo recognition and trafficking in selective autophagy. Nat Cell Biol 2014; 16:495-501; PMID:24875736; http://dx.doi.org/10.1038/ncb2979
    • (2014) Nat Cell Biol , vol.16 , pp. 495-501
    • Stolz, A.1    Ernst, A.2    Dikic, I.3
  • 4
    • 33947383050 scopus 로고    scopus 로고
    • ATG genes involved in non-selective autophagy are conserved from yeast to man, but the selective Cvt and pexophagy pathways also require organism-specific genes
    • PMID:17204848
    • Meijer WH, van der Klei IJ, Veenhuis M, Kiel JA. ATG genes involved in non-selective autophagy are conserved from yeast to man, but the selective Cvt and pexophagy pathways also require organism-specific genes. Autophagy 2007; 3:106-16; PMID:17204848; http://dx.doi.org/10.4161/auto.3595
    • (2007) Autophagy , vol.3 , pp. 106-116
    • Meijer, W.H.1    Van Der Klei, I.J.2    Veenhuis, M.3    Kiel, J.A.4
  • 5
    • 77954237882 scopus 로고    scopus 로고
    • Network organization of the human autophagy system
    • PMID:20562859
    • Behrends C, Sowa ME, Gygi SP, Harper JW. Network organization of the human autophagy system. Nature 2010; 466:68-76;PMID:20562859; http://dx.doi.org/10.1038/nature09204
    • (2010) Nature , vol.466 , pp. 68-76
    • Behrends, C.1    Sowa, M.E.2    Gygi, S.P.3    Harper, J.W.4
  • 7
    • 84872148923 scopus 로고    scopus 로고
    • Autophagy and selective deployment of Atg proteins in antiviral defense
    • PMID:23042773
    • Yordy B, Tal MC, Hayashi K, Arojo O, Iwasaki A. Autophagy and selective deployment of Atg proteins in antiviral defense. Int Immunol 2013; 25:1-10; PMID:23042773; http://dx.doi.org/10.1093/intimm/dxs101
    • (2013) Int Immunol , vol.25 , pp. 1-10
    • Yordy, B.1    Tal, M.C.2    Hayashi, K.3    Arojo, O.4    Iwasaki, A.5
  • 8
    • 0036702197 scopus 로고    scopus 로고
    • Molecular machinery required for autophagy and the cytoplasm to vacuole targeting (Cvt) pathway in S. Cerevisiae
    • PMID:12383798
    • Khalfan WA, Klionsky DJ. Molecular machinery required for autophagy and the cytoplasm to vacuole targeting (Cvt) pathway in S. cerevisiae. Curr Opin Cell Biol 2002; 14:468-75; PMID:12383798; http://dx.doi.org/10.1016/S0955-0674(02)00343-5
    • (2002) Curr Opin Cell Biol , vol.14 , pp. 468-475
    • Khalfan, W.A.1    Klionsky, D.J.2
  • 9
    • 79953652969 scopus 로고    scopus 로고
    • The Atg6/Vps30/Beclin 1 ortholog BEC-1 mediates endocytic retrograde transport in addition to autophagy in C. Elegans
    • PMID:21183797
    • Ruck A, Attonito J, Garces KT, Nunez L, Palmisano NJ, Rubel Z, Bai Z, Nguyen KC, Sun L, Grant BD, et al. The Atg6/Vps30/Beclin 1 ortholog BEC-1 mediates endocytic retrograde transport in addition to autophagy in C. elegans. Autophagy 2011; 7:386-400;PMID:21183797; http://dx.doi.org/10.4161/auto.7.4.14391
    • (2011) Autophagy , vol.7 , pp. 386-400
    • Ruck, A.1    Attonito, J.2    Garces, K.T.3    Nunez, L.4    Palmisano, N.J.5    Rubel, Z.6    Bai, Z.7    Nguyen, K.C.8    Sun, L.9    Grant, B.D.10
  • 10
    • 0031417385 scopus 로고    scopus 로고
    • Two distinct pathways for targeting proteins from the cytoplasm to the vacuole/lysosome
    • PMID:9412464
    • Baba M, Osumi M, Scott SV, Klionsky DJ, Ohsumi Y. Two distinct pathways for targeting proteins from the cytoplasm to the vacuole/lysosome. J Cell Biol 1997; 139:1687-95; PMID:9412464; http://dx.doi.org/10.1083/jcb.139.7.1687
    • (1997) J Cell Biol , vol.139 , pp. 1687-1695
    • Baba, M.1    Osumi, M.2    Scott, S.V.3    Klionsky, D.J.4    Ohsumi, Y.5
  • 11
    • 0030852279 scopus 로고    scopus 로고
    • Is targeted to the vacuole by a nonclassical vesicular mechanism
    • PMID:9214379
    • Scott SV, Baba M, Ohsumi Y, Klionsky DJ. Aminopeptidase I is targeted to the vacuole by a nonclassical vesicular mechanism. J Cell Biol 1997; 138:37-44; PMID:9214379; http://dx.doi.org/10.1083/jcb.138.1.37
    • (1997) J Cell Biol , vol.138 , pp. 37-44
    • Scott, S.V.1    Baba, M.2    Ohsumi, Y.3    Klionsky, D.J.4    Aminopeptidase, I.5
  • 12
    • 0029916949 scopus 로고    scopus 로고
    • Identification of a cytoplasm to vacuole targeting determinant in aminopeptidase I
    • PMID:8601598
    • Oda MN, Scott SV, Hefner-Gravink A, Caffarelli AD, Klionsky DJ. Identification of a cytoplasm to vacuole targeting determinant in aminopeptidase I. J Cell Biol 1996; 132:999-1010; PMID:8601598; http://dx.doi.org/10.1083/jcb.132.6.999
    • (1996) J Cell Biol , vol.132 , pp. 999-1010
    • Oda, M.N.1    Scott, S.V.2    Hefner-Gravink, A.3    Caffarelli, A.D.4    Klionsky, D.J.5
  • 13
    • 84858991802 scopus 로고    scopus 로고
    • Propeptide of aminopeptidase 1 protein mediates aggregation and vesicle formation in cytoplasm-to-vacuole targeting pathway
    • PMID:22123825
    • Morales Quinones M, Winston JT, Stromhaug PE. Propeptide of aminopeptidase 1 protein mediates aggregation and vesicle formation in cytoplasm-to-vacuole targeting pathway. J Biol Chem 2012; 287:10121-33; PMID:22123825; http://dx.doi.org/10.1074/jbc.M111.311696
    • (2012) J Biol Chem , vol.287 , pp. 10121-10133
    • Morales Quinones, M.1    Winston, J.T.2    Stromhaug, P.E.3
  • 14
    • 16344365254 scopus 로고    scopus 로고
    • Atg11 links cargo to the vesicle- forming machinery in the cytoplasm to vacuole targeting pathway
    • PMID:15659643
    • Yorimitsu T, Klionsky DJ. Atg11 links cargo to the vesicle- forming machinery in the cytoplasm to vacuole targeting pathway. Mol Biol Cell 2005; 16:1593-605;PMID:15659643; http://dx.doi.org/10.1091/mbc.E04-11-1035
    • (2005) Mol Biol Cell , vol.16 , pp. 1593-1605
    • Yorimitsu, T.1    Klionsky, D.J.2
  • 15
    • 0034964443 scopus 로고    scopus 로고
    • Cvt19 is a receptor for the cytoplasm-to-vacuole targeting pathway
    • PMID:11430817
    • Scott SV, Guan J, Hutchins MU, Kim J, Klionsky DJ. Cvt19 is a receptor for the cytoplasm-to-vacuole targeting pathway. Mol Cell 2001; 7:1131-41;PMID:11430817; http://dx.doi.org/10.1016/S1097-2765(01)00263-5
    • (2001) Mol Cell , vol.7 , pp. 1131-1141
    • Scott, S.V.1    Guan, J.2    Hutchins, M.U.3    Kim, J.4    Klionsky, D.J.5
  • 16
    • 0035503594 scopus 로고    scopus 로고
    • The pre-autophagosomal structure organized by concerted functions of APG genes is essential for autophagosome formation
    • PMID:11689437
    • Suzuki K, Kirisako T, Kamada Y, Mizushima N, Noda T, Ohsumi Y. The pre-autophagosomal structure organized by concerted functions of APG genes is essential for autophagosome formation. EMBO J 2001; 20:5971-81; PMID:11689437; http://dx.doi.org/10.1093/emboj/20.21.5971
    • (2001) EMBO J , vol.20 , pp. 5971-5981
    • Suzuki, K.1    Kirisako, T.2    Kamada, Y.3    Mizushima, N.4    Noda, T.5    Ohsumi, Y.6
  • 17
    • 0036900568 scopus 로고    scopus 로고
    • Studies of cargo delivery to the vacuole mediated by autophagosomes in Saccharomyces cerevisiae
    • PMID:12479807
    • Suzuki K, Kamada Y, Ohsumi Y. Studies of cargo delivery to the vacuole mediated by autophagosomes in Saccharomyces cerevisiae. Dev Cell 2002; 3:815-24; PMID:12479807; http://dx.doi.org/10.1016/S1534-5807(02)00359-3
    • (2002) Dev Cell , vol.3 , pp. 815-824
    • Suzuki, K.1    Kamada, Y.2    Ohsumi, Y.3
  • 18
    • 0026640551 scopus 로고
    • Of Saccharomyces cerevisiae is localized to the vacuole independent of the secretory pathway
    • PMID:1400574
    • Klionsky DJ, Cueva R, Yaver DS. Aminopeptidase I of Saccharomyces cerevisiae is localized to the vacuole independent of the secretory pathway. J Cell Biol 1992; 119:287-99; PMID:1400574; http://dx.doi.org/10.1083/jcb.119.2.287
    • (1992) J Cell Biol , vol.119 , pp. 287-299
    • Klionsky, D.J.1    Cueva, R.2    Yaver, D.S.3    Aminopeptidase, I.4
  • 19
    • 0035910577 scopus 로고    scopus 로고
    • Degradation of lipid vesicles in the yeast vacuole requires function of Cvt17, a putative lipase
    • PMID:11085977
    • Teter SA, Eggerton KP, Scott SV, Kim J, Fischer AM, Klionsky DJ. Degradation of lipid vesicles in the yeast vacuole requires function of Cvt17, a putative lipase. J Biol Chem 2001; 276:2083-7; PMID:11085977; http://dx.doi.org/10.1074/jbc.C000739200
    • (2001) J Biol Chem , vol.276 , pp. 2083-2087
    • Teter, S.A.1    Eggerton, K.P.2    Scott, S.V.3    Kim, J.4    Fischer, A.M.5    Klionsky, D.J.6
  • 20
    • 77956404377 scopus 로고    scopus 로고
    • Eaten alive: A history of macroautophagy
    • PMID:20811353
    • Yang Z, Klionsky DJ. Eaten alive: a history of macroautophagy. Nat Cell Biol 2010; 12:814-22;PMID:20811353; http://dx.doi.org/10.1038/ncb0910-814
    • (2010) Nat Cell Biol , vol.12 , pp. 814-822
    • Yang, Z.1    Klionsky, D.J.2
  • 21
    • 84862491849 scopus 로고    scopus 로고
    • Structure of human aspartyl aminopeptidase complexed with substrate analogue: Insight into catalytic mechanism, substrate specificity and M18 peptidase family
    • PMID:22720794
    • Chaikuad A, Pilka ES, De Riso A, von Delft F, Kavanagh KL, Venien-Bryan C, Oppermann U, Yue WW. Structure of human aspartyl aminopeptidase complexed with substrate analogue: insight into catalytic mechanism, substrate specificity and M18 peptidase family. BMC Struct Biol 2012; 12:14; PMID:22720794; http://dx.doi.org/10.1186/1472-6807-12-14
    • (2012) BMC Struct Biol , vol.12 , pp. 14
    • Chaikuad, A.1    Pilka, E.S.2    De Riso, A.3    Von Delft, F.4    Kavanagh, K.L.5    Venien-Bryan, C.6    Oppermann, U.7    Yue, W.W.8
  • 23
    • 0042855798 scopus 로고    scopus 로고
    • On the analysis of protein self-association by sedimentation velocity analytical ultracentrifugation
    • PMID:12895474
    • Schuck P. On the analysis of protein self-association by sedimentation velocity analytical ultracentrifugation. Anal Biochem 2003; 320:104-24; PMID:12895474; http://dx.doi.org/10.1016/S0003-2697(03)00289-6
    • (2003) Anal Biochem , vol.320 , pp. 104-124
    • Schuck, P.1
  • 24
    • 84879816463 scopus 로고    scopus 로고
    • Three-dimensional structure of human NLRP10/PYNOD pyrin domain reveals a homotypic interaction site distinct from its mouse homologue
    • PMID:23861819
    • Su MY, Kuo CI, Chang CF, Chang CI. Three-dimensional structure of human NLRP10/PYNOD pyrin domain reveals a homotypic interaction site distinct from its mouse homologue. PloS one 2013; 8:e67843;PMID:23861819; http://dx.doi.org/10.1371/journal.pone.0067843
    • (2013) Plos One , vol.8
    • Su, M.Y.1    Kuo, C.I.2    Chang, C.F.3    Chang, C.I.4
  • 25
    • 84881265843 scopus 로고    scopus 로고
    • Structures of an ATP-independent Lon-like protease and its complexes with covalent inhibitors
    • PMID:23897463
    • Liao JH, Ihara K, Kuo CI, Huang KF, Wakatsuki S, Wu SH, Chang CI. Structures of an ATP-independent Lon-like protease and its complexes with covalent inhibitors. Acta Crystallogr D Biol Crystallogr 2013; 69:1395-402; PMID:23897463; http://dx.doi.org/10.1107/S0907444913008214
    • (2013) Acta Crystallogr D Biol Crystallogr , vol.69 , pp. 1395-1402
    • Liao, J.H.1    Ihara, K.2    Kuo, C.I.3    Huang, K.F.4    Wakatsuki, S.5    Wu, S.H.6    Chang, C.I.7
  • 26
  • 27
    • 0017705461 scopus 로고
    • The quaternary structure of yeast aminopeptidase I. Two. Geometric arrangement of subunits
    • PMID:146356
    • Marx R, Metz G, Rohn KH. The quaternary structure of yeast aminopeptidase I. Two. Geometric arrangement of subunits. Z Naturforsch C 1977; 32:938-43;PMID:146356
    • (1977) Z Naturforsch C , vol.32 , pp. 938-943
    • Marx, R.1    Metz, G.2    Rohn, K.H.3
  • 28
    • 0017748912 scopus 로고
    • The quaternary structure of yeast aminopeptidase I. One. Molecular forms and subunit size
    • PMID:146355
    • Metz G, Marx R, Rohm KH. The quaternary structure of yeast aminopeptidase I. One. Molecular forms and subunit size. Z Naturforsch C 1977; 32:929-37;PMID:146355
    • (1977) Z Naturforsch C , vol.32 , pp. 929-937
    • Metz, G.1    Marx, R.2    Rohm, K.H.3
  • 29
    • 0030997923 scopus 로고    scopus 로고
    • Transport of a large oligomeric protein by the cytoplasm to vacuole protein targeting pathway
    • PMID:9151668
    • Kim J, Scott SV, Oda MN, Klionsky DJ. Transport of a large oligomeric protein by the cytoplasm to vacuole protein targeting pathway. J Cell Biol 1997; 137:609-18; PMID:9151668; http://dx.doi.org/10.1083/jcb.137.3.609
    • (1997) J Cell Biol , vol.137 , pp. 609-618
    • Kim, J.1    Scott, S.V.2    Oda, M.N.3    Klionsky, D.J.4
  • 30
    • 39449115394 scopus 로고    scopus 로고
    • I-TASSER server for protein 3D structure prediction
    • PMID:18215316
    • Zhang Y. I-TASSER server for protein 3D structure prediction. BMC Bioinformatics 2008; 9:40;PMID:18215316; http://dx.doi.org/10.1186/1471-2105-9-40
    • (2008) BMC Bioinformatics , vol.9 , pp. 40
    • Zhang, Y.1
  • 31
    • 77955836670 scopus 로고    scopus 로고
    • Coiled coils: Attractive protein folding motifs for the fabrication of self-assembled, responsive and bioactive materials
    • PMID:20676430
    • Apostolovic B, Danial M, Klok HA. Coiled coils: attractive protein folding motifs for the fabrication of self-assembled, responsive and bioactive materials. Chem Soc Rev 2010; 39:3541-75; PMID:20676430; http://dx.doi.org/10.1039/b914339b
    • (2010) Chem Soc Rev , vol.39 , pp. 3541-3575
    • Apostolovic, B.1    Danial, M.2    Klok, H.A.3
  • 32
    • 84899848892 scopus 로고    scopus 로고
    • Cargo binding to Atg19 unmasks additional Atg8 binding sites to mediate membrane-cargo apposition during selective autophagy
    • PMID:24705553
    • Sawa-Makarska J, Abert C, Romanov J, Zens B, Ibiricu I, Martens S. Cargo binding to Atg19 unmasks additional Atg8 binding sites to mediate membrane-cargo apposition during selective autophagy. Nat Cell Biol 2014; 16:425-33; PMID:24705553; http://dx.doi.org/10.1038/ncb2935
    • (2014) Nat Cell Biol , vol.16 , pp. 425-433
    • Sawa-Makarska, J.1    Abert, C.2    Romanov, J.3    Zens, B.4    Ibiricu, I.5    Martens, S.6
  • 34
    • 0031059866 scopus 로고    scopus 로고
    • Processing of X-ray diffraction data collected in oscillationmode
    • Otwinowski Z, Minor W. Processing of X-ray diffraction data collected in oscillationmode. Macromolecular Crystallography, Pt A 1997; 276:307-26; http://dx.doi.org/10.1016/S0076-6879(97)76066-X
    • (1997) Macromolecular Crystallography , vol.276 , pp. 307-326
    • Otwinowski, Z.1    Minor, W.2
  • 35
    • 43749083257 scopus 로고    scopus 로고
    • CHAINSAW: A program for mutating pdb files used as templates in molecular replacement
    • Stein N. CHAINSAW: a program for mutating pdb files used as templates in molecular replacement. J Appl Crystallogr 2008; 41:641-3; http://dx.doi.org/10.1107/S0021889808006985
    • (2008) J Appl Crystallogr , vol.41 , pp. 641-643
    • Stein, N.1
  • 37
    • 0028103275 scopus 로고
    • The Ccp4 Suite - Programs for Protein Crystallography
    • PMID:15299374
    • Bailey S. The Ccp4 Suite - Programs for Protein Crystallography. Acta Crystallogr D 1994; 50:760-3;PMID:15299374; http://dx.doi.org/10.1107/S0907444993011898
    • (1994) Acta Crystallogr D , vol.50 , pp. 760-763
    • Bailey, S.1
  • 38
    • 33748337934 scopus 로고    scopus 로고
    • The Buccaneer software for automated model building. One. Tracing protein chains
    • PMID:16929101
    • Cowtan K. The Buccaneer software for automated model building. One. Tracing protein chains. Acta Crystallogr D 2006; 62:1002-11; PMID:16929101; http://dx.doi.org/10.1107/S0907444906022116
    • (2006) Acta Crystallogr D , vol.62 , pp. 1002-1011
    • Cowtan, K.1
  • 39
    • 13244281317 scopus 로고    scopus 로고
    • Coot: Model-building tools for molecular graphics
    • PMID:15572765
    • Emsley P, Cowtan K. Coot: model-building tools for molecular graphics. Acta Crystallogr D Biol Crystallogr 2004; 60:2126-32; PMID:15572765; http://dx.doi.org/10.1107/S0907444904019158
    • (2004) Acta Crystallogr D Biol Crystallogr , vol.60 , pp. 2126-2132
    • Emsley, P.1    Cowtan, K.2
  • 42
    • 0034009520 scopus 로고    scopus 로고
    • Size-distribution analysis of macromolecules by sedimentation velocity ultracentrifugation and lamm equation modeling
    • PMID:10692345
    • Schuck P. Size-distribution analysis of macromolecules by sedimentation velocity ultracentrifugation and lamm equation modeling. Biophys J 2000; 78:1606-19; PMID:10692345; http://dx.doi.org/10.1016/S0006-3495(00)76713-0
    • (2000) Biophys J , vol.78 , pp. 1606-1619
    • Schuck, P.1
  • 43
    • 33845332754 scopus 로고    scopus 로고
    • EMAN2: An extensible image processing suite for electron microscopy
    • PMID:16859925
    • Tang G, Peng L, Baldwin PR, Mann DS, Jiang W, Rees I, Ludtke SJ. EMAN2: an extensible image processing suite for electron microscopy. J Struct Biol 2007; 157:38-46; PMID:16859925; http://dx.doi.org/10.1016/j.jsb.2006.05.009
    • (2007) J Struct Biol , vol.157 , pp. 38-46
    • Tang, G.1    Peng, L.2    Baldwin, P.R.3    Mann, D.S.4    Jiang, W.5    Rees, I.6    Ludtke, S.J.7
  • 45
    • 33845621535 scopus 로고    scopus 로고
    • Ambient occlusion and edge cueing to enhance real time molecular visualization
    • PMID:17080857
    • Tarini M, Cignoni P, Montani C. Ambient occlusion and edge cueing to enhance real time molecular visualization. IEEE Trans Vis Comput Graphics 2006; 12:1237-44; PMID:17080857; http://dx.doi.org/10.1109/TVCG.2006.115
    • (2006) IEEE Trans Vis Comput Graphics , vol.12 , pp. 1237-1244
    • Tarini, M.1    Cignoni, P.2    Montani, C.3
  • 46
    • 0035066836 scopus 로고    scopus 로고
    • Global indicators of X-ray data quality
    • Weiss MS. Global indicators of X-ray data quality. J Appl Crystallogr 2001; 34:130-5; http://dx.doi.org/10.1107/S0021889800018227
    • (2001) J Appl Crystallogr , vol.34 , pp. 130-135
    • Weiss, M.S.1
  • 47
    • 84861425552 scopus 로고    scopus 로고
    • Linking crystallographic model and data quality
    • PMID:22628654
    • Karplus PA, Diederichs K. Linking crystallographic model and data quality. Science 2012; 336:1030-3;PMID:22628654; http://dx.doi.org/10.1126/science.1218231
    • (2012) Science , vol.336 , pp. 1030-1033
    • Karplus, P.A.1    Diederichs, K.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.