Standard name
Human Ortholog
Description Ubiquitin-specific protease involved in transport and osmotic response; negatively regulates Ras/PKA signaling; interacts with Bre5p to coregulate anterograde, retrograde transport between ER and Golgi; involved in transcription elongation in response to osmostress through phosphorylation at Ser695 by Hog1p; inhibitor of gene silencing; role in ribophagy; cleaves ubiquitin fusions but not polyubiquitin; protein abundance increases in response to DNA replication stress

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 0 0 0 0 0 0 0 0 0 0.06 0.07 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 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 0
Bud Site 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Cell Periphery 0 0 0.05 0.07 0 0.07 0 0.05 0 0 0.06 0.06 0 0 0 0 0.09 0 0 0 0 0 0 0
Cytoplasm 0.97 0.95 0.92 0.87 0.87 0.78 0.7 0.66 0.66 0.58 0.55 0.55 0.97 0.95 0.95 0.88 0.92 0.93 0.93 0.95 0.88 0.71 0.61 0.54
Endoplasmic Reticulum 0 0.05 0.08 0.11 0.1 0.17 0.17 0.23 0.18 0.17 0.14 0.15 0 0 0 0 0 0 0 0 0.05 0.17 0.24 0.26
Endosome 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 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 0
Mitochondria 0 0 0 0 0 0 0.12 0 0.16 0.23 0.32 0.23 0 0 0 0 0 0 0 0 0 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 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 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 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 0
SpindlePole 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Vac/Vac Membrane 0 0 0 0 0 0 0 0.05 0.05 0.06 0 0.1 0 0 0 0.11 0 0.05 0 0 0 0 0 0.07
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 1 1 1 2 10 12 14 7 11 17 18 0 0 1 2 2 0 0 0 0 1 3 1
Bud 0 0 1 0 0 0 3 2 2 1 2 1 0 0 0 0 0 0 0 4 1 1 4 4
Bud Neck 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 1
Bud Site 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Cell Periphery 4 19 22 17 14 24 15 18 10 12 17 14 6 8 11 17 31 12 0 0 0 0 0 0
Cytoplasm 296 498 439 218 278 269 247 230 153 159 151 136 271 290 327 369 314 342 277 501 438 147 245 155
Endoplasmic Reticulum 8 26 37 27 33 59 60 79 42 46 39 38 5 13 15 13 12 12 9 7 25 35 97 73
Endosome 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 1 1 1 1 0 0 1 2 6
Golgi 0 0 1 1 1 3 5 8 2 1 0 4 0 0 1 8 2 1 0 0 3 2 12 10
Mitochondria 0 1 0 1 2 15 42 15 37 63 87 57 2 1 0 5 0 2 0 2 6 3 9 4
Nucleus 0 0 2 0 1 0 3 5 5 3 2 3 2 1 2 1 5 4 1 0 0 0 0 0
Nuclear Periphery 0 0 0 0 0 0 0 1 1 0 1 1 0 0 0 0 0 0 1 0 0 0 2 0
Nucleolus 0 0 0 0 1 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 0
SpindlePole 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0
Vac/Vac Membrane 2 2 3 1 6 5 13 16 11 15 8 25 0 0 1 48 13 17 2 9 15 8 17 21
Unique Cell Count 305 522 476 250 318 346 353 351 231 272 273 246 280 305 343 420 342 369 300 531 497 207 401 285
Labelled Cell Count 310 547 506 266 338 385 400 389 270 311 324 297 286 313 358 464 380 391 300 531 497 207 401 285


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) 15.8 17.1 13.5 12.5 13.5 11.8 11.7 12.0 11.0 10.2 9.2 10.0 15.3 16.3 16.4 16.4 18.0 17.1 14.1 15.1 16.0
Std Deviation (1e-4) 3.0 2.8 1.8 1.7 1.6 1.9 1.9 1.8 2.0 1.8 1.9 1.9 2.4 2.3 2.6 4.0 3.7 3.8 2.8 2.5 3.0
Intensity Change (Log2) -0.11 0.0 -0.19 -0.2 -0.17 -0.29 -0.4 -0.55 -0.43 0.19 0.27 0.29 0.28 0.42 0.35 0.07 0.17 0.25


Localization RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3
Cortical Patches 0 0 0 3.7 4.0 0 0 5.2 5.7 0 0 0 0 0 0
Bud 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
Bud Site 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Cell Periphery 1.2 -0.1 1.4 -0.3 0.3 -0.2 -0.1 1.0 0.6 -1.7 -1.4 -1.0 -0.4 2.5 -1.0
Cytoplasm -2.2 -2.2 -5.9 -8.4 -9.7 -8.8 -11.1 -11.9 -11.7 2.5 1.6 1.8 -2.2 -0.2 0.2
Endoplasmic Reticulum 1.4 1.3 4.1 4.1 6.0 4.1 3.8 2.8 3.2 -3.5 -2.0 -2.0 -3.0 -2.5 -2.8
Endosome 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Golgi 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Mitochondria 0 0 4.6 7.7 4.6 9.0 11.0 13.1 10.9 0 0 0 0 0 0
Nucleus 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
Nucleolus 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
SpindlePole 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Vacuole 0 0 0 3.2 3.7 0 4.2 0 6.3 0 0 0 7.0 3.2 3.8

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 11.1607 15.734 13.4232 11.5687 11.1686 13.6283 11.7596 16.1865 14.7565 12.2784 12.6342 14.516 10.8645 14.3946 13.2516 13.2177 11.5316 13.0438
Actin 0.0094 0.0023 0.0055 0.0235 0.0199 0.0073 0.0148 0.0006 0.0016 0.0229 0.0032 0.0014 0.0193 0.0043 0.0104 0.0323 0.0298 0.0055
Bud 0.001 0.0006 0.0014 0.0015 0.0014 0.001 0.0025 0.0033 0.0014 0.0029 0.0006 0.001 0.0098 0.0119 0.0145 0.0117 0.0072 0.005
Bud Neck 0.0036 0.0006 0.001 0.0014 0.0015 0.0035 0.0018 0.0004 0.0007 0.0014 0.0006 0.0011 0.0011 0.0007 0.0011 0.0012 0.001 0.002
Bud Periphery 0.0012 0.0004 0.0013 0.0012 0.0018 0.001 0.0022 0.0008 0.0006 0.0036 0.0004 0.001 0.0057 0.0038 0.006 0.0069 0.0028 0.0018
Bud Site 0.0042 0.0016 0.0043 0.0021 0.0139 0.001 0.0062 0.0068 0.0011 0.0078 0.0006 0.0002 0.0093 0.0415 0.0158 0.0082 0.0014 0.0033
Cell Periphery 0.002 0.0012 0.0013 0.0006 0.0005 0.0005 0.0012 0.0003 0.0004 0.0013 0.0001 0.0003 0.0015 0.001 0.0009 0.0007 0.0004 0.0004
Cytoplasm 0.6016 0.918 0.7614 0.6415 0.549 0.7196 0.7055 0.9028 0.863 0.6056 0.6994 0.7974 0.7169 0.8475 0.8207 0.7941 0.6896 0.8001
Cytoplasmic Foci 0.023 0.0096 0.0215 0.0255 0.0341 0.033 0.0183 0.0135 0.0198 0.0238 0.0357 0.0218 0.0305 0.0299 0.0221 0.0359 0.0362 0.0305
Eisosomes 0.0003 0 0.0005 0.0002 0.0003 0 0.0004 0 0 0.0002 0.0001 0 0.0002 0 0 0.0002 0.0002 0
Endoplasmic Reticulum 0.1374 0.0226 0.0343 0.0416 0.0606 0.078 0.0771 0.0155 0.0248 0.0271 0.0119 0.0444 0.0352 0.0108 0.0163 0.0061 0.007 0.0346
Endosome 0.1034 0.0242 0.078 0.0848 0.1462 0.0847 0.0821 0.0339 0.0508 0.1564 0.1682 0.0825 0.0714 0.0247 0.0468 0.0475 0.1492 0.0752
Golgi 0.0188 0.0076 0.0116 0.0389 0.0277 0.0185 0.0173 0.006 0.0085 0.0256 0.0205 0.0189 0.0105 0.0031 0.0069 0.0097 0.0116 0.01
Lipid Particles 0.0088 0.0002 0.0071 0.0078 0.03 0.0006 0.004 0.0001 0.0003 0.0048 0.004 0.0001 0.0046 0.0009 0.0007 0.0147 0.0024 0.0008
Mitochondria 0.0172 0.0024 0.0126 0.0414 0.0324 0.0269 0.0274 0.0026 0.0041 0.0542 0.0133 0.0177 0.0188 0.002 0.005 0.0016 0.0021 0.0086
None 0.0036 0.0005 0.0026 0.0006 0.0007 0.0011 0.0019 0.0005 0.0008 0.0015 0.002 0.0007 0.0109 0.0035 0.003 0.0064 0.0066 0.0022
Nuclear Periphery 0.0116 0.0011 0.004 0.0044 0.007 0.0035 0.0069 0.0008 0.0013 0.0032 0.0152 0.001 0.0076 0.001 0.0022 0.0017 0.003 0.0041
Nucleolus 0.001 0 0.0008 0.0001 0.0004 0.0009 0.0003 0 0 0.0003 0.0003 0 0.0038 0.0005 0.0028 0.0002 0.0003 0.0003
Nucleus 0.0059 0.0009 0.0075 0.0015 0.0026 0.0021 0.0028 0.0008 0.0009 0.0019 0.0026 0.0007 0.0079 0.0031 0.0041 0.0017 0.0033 0.0029
Peroxisomes 0.0018 0.0001 0.0037 0.0286 0.0384 0.0002 0.0014 0.0001 0.0002 0.0064 0.0009 0.0001 0.0013 0.0005 0.0005 0.0092 0.0029 0.0004
Punctate Nuclear 0.0056 0.0001 0.0005 0.0003 0.0011 0.0006 0.0007 0.0001 0.0001 0.0016 0.0007 0 0.0038 0.0009 0.0008 0.0027 0.0026 0.0028
Vacuole 0.0319 0.0047 0.0318 0.0417 0.019 0.0114 0.0195 0.0091 0.016 0.0331 0.0124 0.006 0.0253 0.007 0.0164 0.0056 0.0332 0.0069
Vacuole Periphery 0.0066 0.0012 0.0072 0.0109 0.0112 0.0045 0.0059 0.0019 0.0037 0.0145 0.0073 0.0037 0.0045 0.0014 0.003 0.0017 0.0073 0.0026

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 40.4864 33.8515 25.6538 42.8157 43.8742 30.5996 49.1562 51.9775 38.1641 50.9308
Translational Efficiency 1.3224 1.6973 1.6755 0.8687 1.0396 1.4217 1.1567 0.8779 1.0431 0.9098

Hit Data

Dataset Hit
Protein Concentration
Protein Localization
Gene Expression
Translational Efficiency
Standard name
Human Ortholog
Description Ubiquitin-specific protease involved in transport and osmotic response; negatively regulates Ras/PKA signaling; interacts with Bre5p to coregulate anterograde, retrograde transport between ER and Golgi; involved in transcription elongation in response to osmostress through phosphorylation at Ser695 by Hog1p; inhibitor of gene silencing; role in ribophagy; cleaves ubiquitin fusions but not polyubiquitin; protein abundance increases in response to DNA replication stress
Localization
Cell Percentages cytoplasm (99%)
Cell Cycle Regulation No
Subcompartmental Group cytoplasm-5

Ubp3

Ubp3


Nearest neighbours ( genes)

correlation threshold

0.6

1.0

0.80


Biological Process (Gene Ontology)

Molecular Function (Gene Ontology)

Cellular Component (Gene Ontology)


Endocytosis
Temp Actin Patch (Sac6-tdTomato) Cortical Patch (Sla1-GFP) Late Endosome (Snf7-GFP) Vacuole (Vph1-GFP)
37℃
RT
Cell Cycle Omics

CYCLoPs (Ubp3-GFP)
Gene / Allele Actin Patch (Sac6-tdTomato) Cortical Patch (Sla1-GFP) Late Endosome (Snf7-GFP) Vacuole (Sac6-tdTomato)
Gene Images
Gene Images
Images are not yet available
Images are not yet available