Standard name
Description Ubiquitin-specific protease involved in protein deubiquitination; forms a complex with AAA peroxins Pex1p and Pex6p; deubiquitinates mono- and polyubiquitinated forms of Pex5p; deubiquitinates Clb5p, counteracting APC activity, and facilitating both Clb5p accumulation and S phase entry; physically interacts with anaphase-promoting complex/cyclosome (APC/C) activator, Cdh1p; catalytic activity regulated by an N-terminal TRAF-like domain and and C-terminal sequences
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Micrographs

ensLOC DeepLoc
Localization WT1 WT2 WT3 RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3 WT1 WT2 WT3 AF100 AF140 AF180
Cortical Patches 0.08 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Bud 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Bud Neck 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Bud Site 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 – – – – – –
Cell Periphery 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Cytoplasm 0.73 0.89 0.84 0.88 0.87 0.81 0.75 0.72 0.67 – 0.56 0.56 0.98 0.98 0.96 0.91 0.81 0.94 0.45 0.67 0.64 0.8 0.82 0.87
Endoplasmic Reticulum 0.1 0.05 0 0 0 0.07 0 0 0.07 – 0.06 0.08 0 0 0 0 0 0.06 0 0 0 0 0 0
Endosome 0.12 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0.33 0.16 0.11 0.05 0.06 0
Golgi 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Mitochondria 0 0 0 0.09 0.06 0.17 0.2 0.18 0.29 – 0.38 0.4 0 0 0 0 0 0 0 0 0.07 0 0 0
Nucleus 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Nuclear Periphery 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Nucleolus 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Peroxisomes 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0 0 0 0 0
SpindlePole 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0.05 0 0 0 0 0
Vac/Vac Membrane 0 0 0.05 0 0.06 0 0 0.08 0 – 0.1 0.09 0 0 0 0.11 0.27 0.07 0 0 0.07 0.05 0 0
ensLOC DeepLoc
Localization WT1 WT2 WT3 RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3 WT1 WT2 WT3 AF100 AF140 AF180
Cortical Patches 18 2 5 1 3 1 3 5 2 – 6 3 0 0 0 0 2 1 10 7 8 0 1 0
Bud 3 1 10 1 1 3 14 4 6 – 7 13 3 1 1 0 0 0 1 2 1 0 1 0
Bud Neck 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 1 2 2 0 0 0
Bud Site 0 0 0 0 0 0 0 1 1 – 0 0 0 0 0 0 0 0 – – – – – –
Cell Periphery 2 3 2 3 3 0 4 2 12 – 8 11 1 1 0 3 2 2 0 0 0 1 0 0
Cytoplasm 157 208 201 215 244 260 372 348 224 – 192 227 151 202 216 267 204 237 117 182 181 70 169 150
Endoplasmic Reticulum 22 12 10 5 8 21 21 14 25 – 20 32 2 2 2 10 2 15 6 2 3 1 3 3
Endosome 26 7 8 5 8 2 12 13 3 – 4 4 1 0 0 2 10 5 85 42 31 3 11 6
Golgi 1 1 1 0 0 2 0 1 2 – 0 0 0 0 0 1 1 0 11 0 4 1 0 0
Mitochondria 0 7 5 23 16 53 100 85 98 – 131 162 0 3 6 4 0 3 4 9 19 1 3 1
Nucleus 0 0 1 0 0 2 6 3 0 – 4 2 0 0 4 11 1 3 0 1 0 0 1 0
Nuclear Periphery 0 0 0 0 0 1 1 2 0 – 3 2 0 0 0 0 0 0 1 1 1 0 0 1
Nucleolus 0 1 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Peroxisomes 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 1 0 0 0 0 0
SpindlePole 4 0 0 0 0 0 0 1 0 – 0 0 0 0 0 0 0 0 12 3 5 0 3 2
Vac/Vac Membrane 6 6 11 4 16 5 18 41 14 – 33 37 0 2 1 33 69 17 2 9 20 4 6 1
Unique Cell Count 214 234 239 243 280 321 493 484 335 342 407 154 206 225 295 251 253 259 271 285 88 207 173
Labelled Cell Count 239 248 254 257 299 350 551 520 387 408 493 158 211 230 331 291 283 259 271 285 88 207 173


Cytoplasm

(Huh et al. Nature 2003 425:686)
Screen WT1 WT2 WT3 RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3 AF100 AF140 AF180
Mean Cell GFP Intensity (1e-4) 9.8 7.6 6.7 6.5 6.8 7.0 7.1 7.2 6.9 – 7.0 7.1 8.0 8.6 7.8 12.4 15.0 14.0 7.8 8.2 9.1
Std Deviation (1e-4) 1.3 1.3 1.1 1.2 1.3 1.2 1.5 1.5 1.7 – 1.8 2.0 1.8 1.6 1.4 2.7 3.1 3.3 1.5 1.6 2.3
Intensity Change (Log2) – – – -0.03 0.03 0.07 0.09 0.11 0.06 – 0.07 0.09 0.27 0.36 0.23 0.9 1.17 1.07 0.23 0.3 0.45


Localization RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3
Cortical Patches 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0
Bud -2.8 -3.0 -2.5 -1.0 0 -1.7 – -1.5 -0.7 -1.2 -2.5 -2.6 0 0 0
Bud Neck 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0
Bud Site 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0
Cell Periphery 0 0 0 0 0 2.1 – 0 0 0 0 0 0 0 0
Cytoplasm 1.4 1.0 -1.0 -2.7 -3.6 -4.6 – -7.1 -7.4 4.4 5.0 4.2 2.2 -0.8 3.4
Endoplasmic Reticulum -1.3 -0.8 1.2 0 -0.9 1.6 – 0.9 1.8 0 -2.1 -2.2 -0.5 -2.4 0.9
Endosome -0.9 -0.3 0 -0.7 -0.5 0 – 0 0 0 0 0 0 0.4 -0.9
Golgi 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0
Mitochondria 3.5 2.1 5.5 6.6 5.9 8.4 – 10.1 10.6 0 0 0.4 0 0 0
Nucleus 0 0 0 0 0 0 – 0 0 0 0 0 2.6 0 0
Nuclear Periphery 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0
Nucleolus 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0
Peroxisomes 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0
SpindlePole 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0
Vacuole -1.9 0.6 -2.1 -0.6 1.9 -0.2 – 2.3 2.1 0 -2.3 -2.8 2.8 6.9 1.0

Images

Circle plot not available

Protein Concentration and Protein Localization Data

R1 R2 R3
G1 Pre-START G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Pre-START G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Pre-START G1 Post-START S/G2 Metaphase Anaphase Telophase
Concentration 6.7936 9.9597 8.8052 8.3151 8.3153 9.1267 4.7988 7.2042 6.6263 5.8215 5.1909 6.419 5.5811 6.5463 5.9609 5.7522 4.8681 6.256
Actin 0.0117 0.0019 0.0133 0.0024 0.0021 0.0079 0.0398 0.0071 0.0079 0.0203 0.0027 0.0025 0.0016 0.0024 0.0079 0.0034 0.0106 0.0032
Bud 0.0005 0.0004 0.0007 0.0007 0.0004 0.0003 0.0004 0.0003 0.0042 0.0003 0.0003 0.0049 0.0003 0.0003 0.0003 0.0007 0.0002 0.0002
Bud Neck 0.0025 0.001 0.0017 0.0026 0.0039 0.0051 0.01 0.0004 0.0014 0.0007 0.0009 0.0041 0.0003 0.0005 0.0004 0.0018 0.0011 0.0073
Bud Periphery 0.0004 0.0002 0.0002 0.0002 0.0001 0.0001 0.0003 0.0001 0.0015 0.001 0.0002 0.002 0.0003 0 0.0001 0.0001 0.0001 0
Bud Site 0.0033 0.0035 0.0045 0.0007 0.0016 0.0004 0.017 0.0072 0.0104 0.0007 0.001 0.0013 0.0013 0.0029 0.0008 0.0008 0.0012 0.0001
Cell Periphery 0.0005 0.0004 0.0002 0.0001 0.0002 0.0001 0.0002 0.0001 0.0004 0.0002 0 0.0001 0.0001 0.0001 0 0 0 0
Cytoplasm 0.7768 0.9035 0.8179 0.8268 0.847 0.855 0.5992 0.837 0.778 0.6782 0.6592 0.7841 0.7605 0.8032 0.8313 0.7551 0.5995 0.7728
Cytoplasmic Foci 0.078 0.0393 0.0704 0.0836 0.0612 0.0599 0.1226 0.1023 0.1044 0.1313 0.1644 0.1242 0.0727 0.09 0.0753 0.1187 0.2138 0.0957
Eisosomes 0 0 0 0 0 0 0.0002 0.0001 0.0001 0.0002 0 0 0 0 0 0 0.0001 0
Endoplasmic Reticulum 0.0208 0.0082 0.0079 0.0039 0.009 0.0147 0.0091 0.0028 0.003 0.003 0.0035 0.0029 0.0079 0.0022 0.0058 0.0028 0.0013 0.003
Endosome 0.0505 0.0185 0.0412 0.0399 0.047 0.0198 0.0742 0.0275 0.0397 0.0784 0.0648 0.0349 0.09 0.0781 0.0332 0.0998 0.0569 0.06
Golgi 0.0076 0.0036 0.0076 0.0142 0.0088 0.003 0.0205 0.0033 0.0066 0.0093 0.0169 0.0092 0.0072 0.0086 0.0042 0.0052 0.0075 0.0067
Lipid Particles 0.0035 0.001 0.0009 0.0004 0.001 0.0003 0.0213 0.0002 0.0027 0.0105 0.0587 0.0007 0.0124 0.0043 0.0008 0.0002 0.0291 0.0002
Mitochondria 0.0104 0.0006 0.0014 0.0018 0.0012 0.0016 0.0029 0.0008 0.004 0.0169 0.002 0.0056 0.0127 0.0007 0.0005 0.0009 0.0011 0.001
None 0.0053 0.0021 0.0025 0.0016 0.0009 0.002 0.0119 0.0034 0.008 0.0078 0.0035 0.0051 0.0111 0.0022 0.009 0.0026 0.0024 0.0419
Nuclear Periphery 0.0037 0.0028 0.0043 0.0018 0.0025 0.0056 0.0125 0.0013 0.0023 0.0022 0.0014 0.0011 0.0022 0.0004 0.0023 0.0008 0.0004 0.0007
Nucleolus 0.0002 0.0001 0.0001 0.0001 0 0.0001 0.0008 0 0.0003 0.0009 0.0001 0.0001 0.0007 0 0 0 0.0001 0
Nucleus 0.0046 0.0071 0.0105 0.0041 0.0078 0.0134 0.0239 0.0014 0.0028 0.003 0.0028 0.0033 0.0023 0.0007 0.0024 0.001 0.0006 0.0018
Peroxisomes 0.0095 0.0012 0.0095 0.01 0.0016 0.0059 0.0209 0.0033 0.0171 0.0111 0.0128 0.0078 0.0042 0.0013 0.0226 0.0027 0.0684 0.0032
Punctate Nuclear 0.0019 0.0015 0.0015 0.0013 0.001 0.0018 0.009 0.0007 0.003 0.0008 0.003 0.0046 0.0021 0.0006 0.0015 0.0008 0.0028 0.001
Vacuole 0.0046 0.0029 0.003 0.0031 0.0021 0.0023 0.0026 0.0006 0.0016 0.0114 0.0012 0.0011 0.0069 0.0013 0.0011 0.0019 0.0023 0.0009
Vacuole Periphery 0.0038 0.0003 0.0007 0.0008 0.0006 0.0006 0.0009 0.0002 0.0005 0.0119 0.0005 0.0004 0.0032 0.0003 0.0004 0.0007 0.0004 0.0004

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 18.8233 11.485 16.0538 29.3125 11.4279 24.4866 22.8874 26.885 33.5858 26.4482
Translational Efficiency 0.932 0.9767 0.9151 0.6966 1.0269 0.8924 0.8299 0.5966 0.6378 0.6188

Hit Data

Dataset Hit
Protein Abundance ✘
Protein Localization ✘
Gene Expression ✘
Translational Efficiency ✘