Table 1.
Plasmid DNAs used in this study
| # | Plasmid DNA | SOURCE |
|---|---|---|
| 1 | pMXs-puro retroviral vector | Cell Biolabs, RTV-012 |
| 2 | pBABE-puro retroviral vector | Addgene, 1764 (Depositing Labs: Hartmut Land, Jay Morgenstern, Bob Weinberg) |
| 3 | pcDNA3.1(+) | Invitrogen, V79020 |
| 4 | pMXs-puro_YFP | Yamano et al. 2020 |
| 5 | pMXs-puro_3FLAG-TEV | Yamano et al. 2020 |
| 6 | pMXs-puro_3HA-TEV | Yamano et al. 2020 |
| 7 | pMXs-puro_TEV-3FLAG | Yamano et al. 2020 |
| 8 | pMXs-puro_TEV-3HA | Yamano et al. 2020 |
| 9 | pBABE-puro_3FLAG-TEV | Yamano et al. 2020 |
| 10 | pBABE-puro_3HA-TEV | Yamano et al. 2020 |
| 11 | pBABE-puro_TEV-3FLAG | Yamano et al. 2020 |
| 12 | pBABE-puro_TEV-3HA | Yamano et al. 2020 |
| 13 | pcDNA3.1(+)_3FLAG-TEV | Yamano et al. 2020 |
| 14 | pcDNA3.1(+)_3HA-TEV | Yamano et al. 2020 |
| 15 | pcDNA3.1(+)_TEV-3FLAG | Yamano et al. 2020 |
| 16 | pcDNA3.1(+)_TEV-3HA | Yamano et al. 2020 |
| 17 | pAsh-MCL | Medical & Biological Laboratories, AM-8011M |
| 18 | pHA-Ash-MCL | Yamano et al. 2020 |
| 19 | phAG-MCL | Medical & Biological Laboratories, AM-8011M |
| 20 | pUMVC (Gag-Pol) | Kindly gifted from Dr. R.Youle Lab. |
| 21 | pCMV-VSV-G (VSV-G) | Kindly gifted from Dr. R.Youle Lab. |
| 22 | pCHAC/EYFP-MAP1LC3B-IRES-MCS2 | Yamano et al. 2014 |
| 23 | FRB-FIS1 | Lazarou et al. 2012 |
| 24 | pBMNz-YFP-PRKN | Lazarou et al. 2015 |
| 25 | pMXs-puro_3FLAG-ZFYVE1 | This study |
| 26 | pMXs-puro_3FLAG-WIPI1 | This study |
| 27 | pMXs-puro_3HA-ZFYVE1 | This study |
| 28 | pMXs-puro_3HA-WIPI1 | This study |
| 29 | pcDNA3.1(+)_3HA-ZFYVE1 | This study |
| 30 | pcDNA3.1(+)_3HA-WIPI1 | This study |
| 31 | pMXs-puro_GST-PRKN | This study |
| 32 | pMXs-puro_HA-PRKN | Matsuda et al. 2010 |
| 33 | pMXs-puro_3FLAG-BCAS3 | This study; gene cloned from cDNA library |
| 34 | pMXs-puro_BCAS3-3FLAG | This study |
| 35 | pMXs-puro_3FLAG-C16orf70 | This study; gene cloned from cDNA library |
| 36 | pMXs-puro_C16orf70-3FLAG | This study |
| 37 | pMXs-puro_3HA-BCAS3 | This study |
| 38 | pMXs-puro_C16orf70-3FLAG | This study |
| 39 | pMXs-puro_3FLAG-ATG2A | This study; gene cloned from pEGFP-C1-hAtg2A (Addgene, 36456; Depositing Lab: Noboru Mizushima) |
| 40 | pMXs-puro_3FLAG-ATG2AΔC | This study |
| 41 | pMXs-puro_3FLAG-CFAP298 | This study; gene cloned from cDNA library |
| 42 | pMXs-puro_3FLAG-CUL4B | This study; gene cloned from pcDNA3-myc3-CUL4B (Addgene, 19922; Depositing Lab: Yue Xiong) |
| 43 | pMXs-puro_3FLAG-DYNLL1 | This study; gene cloned from cDNA library |
| 44 | pMXs-puro_3FLAG-GGA3 | This study; gene cloned from 1574 pSG5L Flag HA GGA3 (Addgene, 11185; Depositing Lab: William Sellers) |
| 45 | pMXs-puro_3FLAG-PEBP1 | This study; gene cloned from R777-E162 Hs.PEBP1-nostop (Addgene, 70446; Depositing Lab: Dominic Esposito) |
| 46 | pMXs-puro_3FLAG-RALA | This study; gene cloned from pBabe puro RalA (short) wt (Addgene, 19723; Depositing Lab: Channing Der) |
| 47 | pMXs-puro_3FLAG-TRAPPC2 | This study; gene cloned from cDNA library |
| 48 | pMXs-puro_3FLAG-TSG101 | This study; gene cloned from pEF6.mCherry-TSG101 (Addgene, 38318; Depositing Lab: Quan Lu) |
| 49 | pMXs-puro_3FLAG-SORBS3 | This study; gene cloned from cDNA library |
| 50 | pMXs-puro_3FLAG-EHMT2 | This study; gene cloned from cDNA library |
| 51 | pMXs-puro_3FLAG-OCIAD2 | This study; gene cloned from cDNA library |
| 52 | pMXs-puro_3FLAG-PDCD10 | This study; gene cloned from cDNA library |
| 53 | pMXs-puro_PDCP10-3FLAG | This study |
| 54 | pMXs-puro_3FLAG-GSTK1 | This study; gene cloned from cDNA library |
| 55 | pMXs-puro_GSTK1-3FLAG | This study |
| 56 | pMXs-puro_3FLAG-MmCHMP5 | This study; gene cloned from pCINeo-mCHMP5 (Addgene, 11771; Depositing Lab: Sankar Ghosh) |
| 57 | pMXs-puro_MmCHMP5-3FLAG | This study |
| 58 | pMXs-puro_3FLAG-MYL6B | This study; gene cloned from cDNA library |
| 59 | pMXs-puro_MYL6B-3FLAG | This study |
| 60 | pMXs-puro_3FLAG-TRAPPC2L | This study; gene cloned from cDNA library |
| 61 | pMXs-puro_TRAPPC2L-3FLAG | This study |
| 62 | pMXs-puro_3FLAG-RAB24 | This study; gene cloned from cDNA library |
| 63 | pMXs-puro_VPS4B-3FLAG | This study; gene cloned from cDNA library |
| 64 | pMXs-puro_3FLAG-VPS4B | This study |
| 65 | pMXs-puro_3FLAG-MTMR6 | This study; gene cloned from cDNA library |
| 66 | pMXs-puro_MTMR6-3FLAG | This study |
| 67 | pMXs-puro_3FLAG-EI24 | This study; gene cloned from cDNA library |
| 68 | pMXs-puro_EI24-3FLAG | This study |
| 69 | pMXs-puro_3FLAG-SAR1B | This study; gene cloned from cDNA library |
| 70 | pMXs-puro_SAR1B-3FLAG | This study |
| 71 | pMXs-puro_3FLAG-CSTB | This study; gene cloned from cDNA library |
| 72 | pMXs-puro_CSTB-3FLAG | This study |
| 73 | pMXs-puro_3FLAG-EDC4 | This study; gene cloned from cDNA library |
| 74 | pMXs-puro_EDC4-3FLAG | This study |
| 75 | pMXs-puro_3FLAG-OPTN | Yamano et al. 2020 |
| 76 | pMXs-puro_3FLAG-SNX3 | This study; gene cloned from cDNA library |
| 77 | pMXs-puro_SNX3-3FLAG | This study |
| 78 | pMXs-puro_3FLAG-RIPK1 | This study; gene cloned from cDNA library |
| 79 | pMXs-puro_RIPK1-3FLAG | This study |
| 80 | pMXs-puro_3FLAG-COASY | This study; gene cloned from cDNA library |
| 81 | pMXs-puro_COASY-3FLAG | This study |
| 82 | pMXs-puro_3FLAG-NMT1 | This study; gene cloned from cDNA library |
| 83 | pMXs-puro_NMT1-3FLAG | This study |
| 84 | pMXs-puro_3FLAG-RAB1B | This study; gene cloned from cDNA library |
| 85 | pMXs-puro_3FLAG-EHD3 | This study; gene cloned from IRAL043P19 (RIKEN BioResource Research Center) |
| 86 | pMXs-puro_3FLAG-HGH1 | This study; gene cloned from IRAL002B07 (RIKEN BioResource Research Center) |
| 87 | pMXs-puro_HGH1-3FLAG | This study |
| 88 | pMXs-puro_3FLAG-YBX3 | This study; gene cloned from IRAL012J06 (RIKEN BioResource Research Center) |
| 89 | pMXs-puro_YBX3-3FLAG | This study |
| 90 | pMXs-puro_3FLAG-HDHD5 | This study; gene cloned from IRAK026K16 (RIKEN BioResource Research Center) |
| 91 | pMXs-puro_HDHD5-3FLAG | This study |
| 92 | pMXs-puro_3FLAG-WHAMM | This study; gene cloned from ARiS122O22 (RIKEN BioResource Research Center) |
| 93 | pMXs-puro_WHAMM-3FLAG | This study |
| 94 | pMXs-puro_3FLAG-RAB1A | This study; gene cloned from cDNA library |
| 95 | pMXs-puro_3FLAG-MmATG16L1 | This study; gene cloned from p3xFLAG-CMV10-mApg16L (Addgene, 24302; Depositing Lab: Noboru Mizushima) |
| 96 | pMXs-puro_3FLAG-HYPK | This study; gene cloned from cDNA library |
| 97 | pMXs-puro_HYPK-3FLAG | This study |
| 98 | pMXs-puro_3FLAG-TBK1 | This study; gene cloned from pWZL Neo Myr Flag TBK1 (Addgene, 20648; Depositing Labs: William Hahn, Jean Zhao) |
| 99 | pMXs-puro_3HA-BCAS3H350A | This study |
| 100 | pMXs-puro_3HA-BCAS3D370A | This study |
| 101 | pMXs-puro_3HA-BCAS3L372A | This study |
| 102 | pMXs-puro_3HA-BCAS3H377A | This study |
| 103 | pMXs-puro_3HA-BCAS3H400A | This study |
| 104 | pMXs-puro_3HA-BCAS3R401A | This study |
| 105 | pMXs-puro_3HA-BCAS3R426A | This study |
| 106 | pMXs-puro_3HA-BCAS3T428A | This study |
| 107 | pMXs-puro_3HA-BCAS3H430A | This study |
| 108 | pMXs-puro_3HA-BCAS3 Δ254-312 | This study |
| 109 | pMXs-puro_3HA-BCAS3 Δ437–560 | This study |
| 110 | pcDNA3.1(+)_C16orf70-3HA | This study |
| 111 | pcDNA3.1(+)_C16orf70-3FLAG | This study |
| 112 | pcDNA3.1(+)_3HA-BCAS3 | This study |
| 113 | pcDNA3.1(+)_3HA-BCAS3(1–471) | This study |
| 114 | pcDNA3.1(+)_3HA-BCAS3(472–913) | This study |
| 115 | pcDNA3.1(+)_3HA-BCAS3(553–913) | This study |
| 116 | pcDNA3.1(+)_3HA-BCAS3(645–913) | This study |
| 117 | pcDNA3.1(+)_3HA-BCAS3(472–913 Δ680–719) | This study |
| 118 | pcDNA3.1(+)_3HA-BCAS3(553–913 Δ680-719) | This study |
| 119 | pcDNA3.1(+)_3HA-BCAS3(645–913 Δ680-719) | This study |
| 120 | pMRX-IP_GFP-mULK1 | Kindly gifted from Dr. Mizushima Lab. |
| 121 | pMXs-puro_GFP-mZFYVE1 | Kindly gifted from Dr. Mizushima Lab. |
| 122 | pMXs-puro_GFP-WIPI1 | Kindly gifted from Dr. Mizushima Lab. |
| 123 | pHA-Ash_C16orf70 | This study |
| 124 | phAG-BCAS3 | This study |
| 125 | pC4M-F2E-3HA-BCAS3-2FKBP-HA | This study |
| 126 | phAG-BCAS3(1–644) | This study |
| 127 | phAG-BCAS3(645–913) | This study |
| 128 | phAG-BCAS3(1–471) | This study |
| 129 | phAG-BCAS3(472–913) | This study |
| 130 | phAG-BCAS3(553–913) | This study |
| 131 | phAG-BCAS3 Δ472–559 | This study |
| 132 | phAG-BCAS3 Δ560–599 | This study |
| 133 | phAG-BCAS3 Δ600–639 | This study |
| 134 | phAG-BCAS3 Δ640–679 | This study |
| 135 | phAG-BCAS3 Δ680-719 | This study |
| 136 | phAG-BCAS3 Δ720–759 | This study |
| 137 | phAG-BCAS3 Δ760–799 | This study |
| 138 | phAG-BCAS3 Δ800–839 | This study |
| 139 | phAG-BCAS3 Δ840–879 | This study |
| 140 | phAG-BCAS3 Δ880–913 | This study |
| 141 | phAG-BCAS3(472–913 Δ680-719) | This study |
| 142 | phAG-BCAS3(553–913 Δ680-719) | This study |
| 143 | phAG-BCAS3(645–913 Δ680-719) | This study |
| 144 | phAG-BCAS3H350A | This study |
| 145 | phAG-BCAS3D370A | This study |
| 146 | phAG-BCAS3L372A | This study |
| 147 | phAG-BCAS3H377A | This study |
| 148 | phAG-BCAS3H400A | This study |
| 149 | phAG-BCAS3R401A | This study |
| 150 | phAG-BCAS3R426A | This study |
| 151 | phAG-BCAS3T428A | This study |
| 152 | phAG-BCAS3H430A | This study |
| 153 | phAG-BCAS3 Δ254-312 | This study |
| 154 | phAG-BCAS3 Δ437–560 | This study |
| 155 | pBABE-puro_Untag-PRKN | Yamano et al. 2020 |
| 156 | pCHAC MCS1-IRES-MCS2 | Allele Biotechnology and Pharmaceuticals, ABP-PVL-BICISIRES |
| 157 | pCHAC_C16orf70-3HA-IRES-MCS2 | This study |
| 158 | pCHAC_C16orf70-3HA-IRES-BCAS3 | This study |
| 159 | pCHAC_C16orf70-3HA-IRES-BCAS3R401A | This study |
| 160 | pRetroQ-mt-Keima | Kindly gifted from Dr. Youle Lab. |
| 161 | pMXs-puro_3FLAG-mULK1 | This study |
| 162 | pET21a vector | Novagen, 69740 |
| 163 | pET21a_BCAS3(645-913)-6×His | This study |
| 164 | pT7-7_GFP-His | Kindly gifted from Dr. Iwai Lab. |
| 165 | pcDNA3.1(+)_GFP-6xHis | This study |
| 166 | pcDNA3.1(+)_GFP-WIPI1-6×His | This study |
| 167 | pcDNA3.1(+)_GFP-BCAS3-6×His | This study |
| 168 | pcDNA3.1(+)_GFP-BCAS3R401A-6×His | This study |
| 169 | pcDNA3.1(+)_GFP-C16orf70-6×His | This study |