Standard name
Human Ortholog
Description Deubiquitylation enzyme that binds to the chaperone-ATPase Cdc48p; may contribute to regulation of protein degradation by deubiquitylating substrates that have been ubiquitylated by Ufd2p; member of the Ovarian Tumor (OTU) family; protein abundance increases in response to DNA replication stress
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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 0 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 0.05
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 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Cytoplasm 0.33 0.39 0.34 0.32 0.23 0.18 0.2 0.29 0.21 0.23 0.25 0.2 0.32 0.3 0.36 0.24 0.21 0.2 0.2 0.27 0.25 0.24 0.24 0.26
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.05 0.05 0 0 0 0 0 0 0
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 0.08 0.14 0 0 0 0.11 0.42 0.1 0.38 0.32 0.34 0.32 0 0 0 0 0 0 0 0 0 0 0 0
Nucleus 0.5 0.37 0.6 0.58 0.58 0.58 0.46 0.48 0.44 0.37 0.41 0.42 0.52 0.59 0.52 0.61 0.5 0.53 0.55 0.45 0.52 0.5 0.48 0.35
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 0.06
Vac/Vac Membrane 0.24 0.24 0.1 0.13 0.23 0.18 0.16 0.2 0.16 0.21 0.19 0.19 0.19 0.13 0.16 0.21 0.37 0.35 0.12 0.15 0.13 0.11 0.12 0.15
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 0 0 0 0 0 0 0 0 2 0 0 1 0
Bud 0 1 0 0 0 0 4 1 4 4 3 0 0 2 0 0 0 0 5 10 4 3 8 15
Bud Neck 0 0 0 0 0 0 0 1 0 0 0 2 0 0 0 0 0 0 0 2 0 1 2 3
Bud Site 0 0 0 1 0 0 2 0 1 1 0 2 0 0 0 0 0 0 – – – – – –
Cell Periphery 0 0 0 0 0 0 0 1 0 0 0 0 1 0 1 0 0 1 0 0 0 0 0 0
Cytoplasm 56 168 52 29 40 42 32 88 43 48 63 69 63 85 107 31 25 33 37 124 45 46 56 77
Endoplasmic Reticulum 1 2 0 0 0 0 0 0 0 0 0 0 1 1 0 6 6 6 0 0 0 1 2 2
Endosome 0 2 1 2 3 6 0 3 0 1 0 1 3 2 3 1 1 2 1 3 0 1 1 4
Golgi 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 1
Mitochondria 13 59 1 1 5 26 68 31 77 67 86 110 2 4 1 5 3 1 3 15 2 3 4 9
Nucleus 84 157 93 53 101 134 74 144 91 79 103 141 103 166 155 78 60 90 103 205 94 98 114 103
Nuclear Periphery 0 0 0 0 0 0 0 0 1 0 0 2 0 0 1 0 0 0 0 0 0 0 0 1
Nucleolus 0 0 1 0 0 0 1 2 1 6 2 6 0 1 0 0 0 0 0 1 0 2 4 6
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 1 0 0 0 1 1 0 0 1 1 0 0 0 0 0 0 8 20 6 8 6 18
Vac/Vac Membrane 40 102 16 12 40 42 25 60 33 45 48 66 38 36 49 27 44 59 22 66 23 22 29 45
Unique Cell Count 169 428 154 92 175 231 161 301 205 211 251 339 198 283 300 128 120 169 186 461 180 196 241 298
Labelled Cell Count 194 491 165 98 189 250 207 332 251 251 307 400 211 297 317 148 139 192 186 461 180 196 241 298


Cytoplasm, Nucleus

(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) 5.1 4.2 6.0 6.0 7.3 6.9 4.8 6.8 6.0 5.9 5.8 5.9 6.1 6.2 6.3 7.2 8.5 8.9 6.8 7.0 6.4
Std Deviation (1e-4) 1.3 1.0 1.5 1.8 2.3 2.5 1.7 2.4 2.4 2.1 2.2 2.1 1.8 1.9 2.2 2.0 2.0 2.5 3.3 2.4 1.8
Intensity Change (Log2) – – – -0.0 0.28 0.19 -0.31 0.17 0.0 -0.04 -0.04 -0.02 0.02 0.05 0.08 0.27 0.5 0.56 0.17 0.22 0.1


Localization RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3
Actin – – – – – – – – – – – – – – –
Bud – – – – – – – – – – – – 0 0 0
Bud Neck – – – – – – – – – – – – 0 0 0
Bud Site – – – – – – – – – – – – 0 0 0
Cell Periphery – – – – – – – – – – – – 0 0 0
Cyto – – – – – – – – – – – – – – –
Endoplasmic Reticulum – – – – – – – – – – – – 0 0 0
Endosome – – – – – – – – – – – – 0 0 0
Golgi – – – – – – – – – – – – 0 0 0
Mitochondria – – – – – – – – – – – – 0 0 0
Nuclear Periphery – – – – – – – – – – – – 0 0 0
Nuc – – – – – – – – – – – – – – –
Nucleolus – – – – – – – – – – – – 0 0 0
Peroxisomes – – – – – – – – – – – – 0 0 0
SpindlePole – – – – – – – – – – – – 0 0 0
Vac – – – – – – – – – – – – – – –
Cortical Patches – – – – – – – – – – – – 0 0 0
Cytoplasm – – – – – – – – – – – – 0 0 0
Nucleus – – – – – – – – – – – – 0 0 0
Vacuole – – – – – – – – – – – – 2.5 5.2 5.2

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 5.0642 5.9405 4.8459 4.1985 4.9069 5.0932 4.0401 4.8834 4.2903 3.9617 4.5563 5.1541 2.6486 2.9958 2.3031 1.7402 3.508 2.6308
Actin 0.0766 0.0014 0.0162 0.0032 0.0106 0.0025 0.027 0.0003 0.0039 0.0011 0.0003 0.002 0.0443 0.0003 0.0453 0.0039 0.0901 0.0085
Bud 0.0014 0.0013 0.0006 0.0003 0.0004 0.0005 0.0008 0.0104 0.0032 0.0049 0.0176 0.0011 0.0006 0.0011 0.0004 0.0004 0.0021 0.0002
Bud Neck 0.0019 0.0006 0.0007 0.0007 0.0013 0.003 0.0016 0.0012 0.0076 0.002 0.0006 0.0029 0.003 0.0004 0.0035 0.0006 0.0014 0.0025
Bud Periphery 0.0035 0.0009 0.0009 0.0003 0.0006 0.0007 0.001 0.0021 0.0027 0.0077 0.003 0.0015 0.0008 0.0009 0.0003 0.0018 0.0039 0.0003
Bud Site 0.0016 0.0036 0.0009 0.0007 0.0065 0.0002 0.0041 0.02 0.0069 0.0009 0.0035 0.0021 0.0066 0.0015 0.0023 0.0009 0.0034 0.0002
Cell Periphery 0.0004 0.0002 0.0002 0 0.0002 0.0001 0.0002 0.0003 0.0008 0.0002 0.0001 0.0001 0.0007 0.0001 0.0001 0.0007 0.0005 0.0001
Cytoplasm 0.0572 0.1062 0.0798 0.0695 0.0836 0.0994 0.0712 0.1269 0.0858 0.0466 0.1241 0.0782 0.0971 0.0927 0.0972 0.1352 0.0706 0.1062
Cytoplasmic Foci 0.0104 0.0042 0.0063 0.0097 0.0077 0.0042 0.0177 0.0066 0.0117 0.0371 0.0062 0.0049 0.0769 0.002 0.0105 0.0021 0.0727 0.0052
Eisosomes 0.0007 0.0001 0.0002 0 0.0003 0 0.0003 0 0.0001 0 0.0001 0 0.0002 0 0.0002 0.0007 0.0003 0
Endoplasmic Reticulum 0.0131 0.0023 0.0025 0.0016 0.0193 0.003 0.0033 0.0029 0.0101 0.003 0.0018 0.0017 0.0129 0.0027 0.0031 0.0035 0.0035 0.0029
Endosome 0.0286 0.0021 0.005 0.01 0.0191 0.0041 0.0244 0.0008 0.0173 0.0041 0.0009 0.0047 0.0319 0.0007 0.0088 0.0064 0.0875 0.0116
Golgi 0.0103 0.0003 0.0071 0.0025 0.0048 0.0011 0.0117 0.0001 0.004 0.0011 0.0001 0.0005 0.0189 0 0.0065 0.0009 0.0584 0.0046
Lipid Particles 0.0213 0.0005 0.0024 0.0029 0.0168 0.0004 0.0129 0.0002 0.0017 0.0029 0.0002 0.0008 0.0249 0.0001 0.006 0.0006 0.0195 0.0017
Mitochondria 0.0068 0.0005 0.0071 0.0009 0.0047 0.0023 0.0035 0.001 0.004 0.0011 0.0006 0.0006 0.0082 0.0005 0.002 0.0584 0.0119 0.0108
None 0.1255 0.0783 0.1775 0.1673 0.2299 0.1002 0.1047 0.0795 0.1299 0.0189 0.2773 0.1214 0.1832 0.1742 0.2219 0.0603 0.1676 0.1138
Nuclear Periphery 0.0404 0.009 0.0134 0.0076 0.0301 0.009 0.0194 0.0095 0.0183 0.0096 0.0059 0.0102 0.0264 0.0114 0.0192 0.0312 0.0025 0.017
Nucleolus 0.0023 0.0045 0.0025 0.0015 0.0068 0.0045 0.0044 0.0047 0.0035 0.0044 0.0029 0.0055 0.0056 0.0021 0.0017 0.0019 0.0023 0.0029
Nucleus 0.5628 0.7541 0.6605 0.7043 0.5147 0.7506 0.6525 0.7129 0.6682 0.7625 0.5361 0.7271 0.3869 0.7002 0.5466 0.662 0.3502 0.6976
Peroxisomes 0.0065 0.0005 0.0041 0.002 0.0071 0.0022 0.0068 0.0002 0.0022 0.007 0.0002 0.001 0.0372 0.0001 0.0063 0.0003 0.0039 0.0042
Punctate Nuclear 0.0158 0.0271 0.0097 0.0139 0.0314 0.0094 0.0289 0.0175 0.0118 0.0811 0.0179 0.0312 0.0178 0.007 0.0169 0.0258 0.041 0.007
Vacuole 0.0091 0.0022 0.0018 0.0008 0.0028 0.0021 0.0027 0.0027 0.0047 0.0031 0.0007 0.0021 0.0148 0.0016 0.001 0.0015 0.0051 0.0016
Vacuole Periphery 0.0038 0.0003 0.0005 0.0002 0.0012 0.0004 0.0009 0.0003 0.0017 0.0005 0.0001 0.0004 0.0012 0.0003 0.0005 0.0009 0.0015 0.0012

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 18.2683 16.3307 16.9654 25.9317 18.159 18.2582 31.648 30.8331 36.2613 30.6262
Translational Efficiency 1.4882 1.5956 2.4205 1.5864 1.5821 2.1934 1.366 1.9832 1.6243 1.5911

Hit Data

Dataset Hit
Protein Concentration ✔
Protein Localization ✘
Gene Expression ✔
Translational Efficiency ✘
Standard name
Human Ortholog
Description Deubiquitylation enzyme that binds to the chaperone-ATPase Cdc48p; may contribute to regulation of protein degradation by deubiquitylating substrates that have been ubiquitylated by Ufd2p; member of the Ovarian Tumor (OTU) family; protein abundance increases in response to DNA replication stress
Localization
Cell Percentages nucleus (42%), cytoplasm (9%), mixed (38%)
Cell Cycle Regulation Yes
cytoplasm - MA (0.0006)
Subcompartmental Group N/A

Otu1

Otu1


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 (Otu1-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