Standard name
Human Ortholog
Description Ubiquitin protease cofactor; forms deubiquitination complex with Ubp3p that coregulates anterograde and retrograde transport between the endoplasmic reticulum and Golgi compartments; null is sensitive to brefeldin A
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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
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 – 0.06 0 0.06 0 0 0.05 0 0 0.11 0 0 0 0 0 0
Cytoplasm 0.97 0.93 0.98 0.95 0.9 0.8 0.54 0.54 – 0.47 0.51 0.42 0.93 0.91 0.97 0.94 0.95 0.91 0.94 0.9 0.93 0.8 0.8 0.78
Endoplasmic Reticulum 0 0 0 0.05 0 0.08 0.11 0.09 – 0.11 0.09 0.1 0.09 0.11 0 0 0.05 0 0 0 0.06 0.08 0.12 0.12
Endosome 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
Mitochondria 0 0 0 0 0.09 0.17 0.4 0.34 – 0.41 0.52 0.6 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
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 0 0 0 0 0
Vac/Vac Membrane 0 0 0 0 0 0 0.1 0.09 – 0.1 0 0.05 0 0 0 0 0 0 0 0 0 0.06 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 0 0 0 0 1 13 6 11 – 8 8 9 0 0 0 0 1 4 0 0 0 0 0 0
Bud 0 1 0 0 1 0 2 7 – 3 1 8 0 0 0 0 0 0 0 0 0 0 0 1
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 1 0 0 3 9 9 13 10 – 21 14 26 5 6 17 6 10 21 0 0 0 0 0 0
Cytoplasm 181 26 121 159 304 326 268 245 – 177 168 186 201 265 331 220 271 179 183 64 114 106 162 215
Endoplasmic Reticulum 5 1 0 8 13 31 56 41 – 41 29 44 19 33 14 4 14 7 5 1 7 10 24 31
Endosome 0 0 0 0 1 0 1 1 – 3 0 0 0 0 0 0 0 0 0 0 0 0 0 2
Golgi 0 0 0 0 1 1 0 2 – 1 1 1 0 0 0 1 2 0 0 0 0 0 0 1
Mitochondria 0 0 3 2 29 68 197 154 – 156 169 261 0 0 0 6 4 3 1 0 0 1 0 2
Nucleus 2 1 0 0 2 1 2 0 – 4 1 0 0 0 0 4 1 2 0 0 0 0 0 0
Nuclear Periphery 0 0 1 0 0 0 2 4 – 3 3 2 0 0 0 0 0 0 0 0 0 0 0 1
Nucleolus 0 0 0 0 0 0 0 0 – 1 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 0 0 0 0 1
Vac/Vac Membrane 1 0 1 2 4 3 47 40 – 36 9 22 0 1 0 4 6 2 0 2 0 7 7 10
Unique Cell Count 187 28 123 168 338 406 494 457 377 327 438 215 291 343 233 286 196 194 71 123 133 202 275
Labelled Cell Count 190 29 126 174 365 452 594 515 454 403 559 225 305 362 245 309 218 194 71 123 133 202 275


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) 16.3 20.5 10.5 11.6 10.3 9.7 8.4 8.6 – 8.4 8.0 8.0 15.9 15.0 15.3 16.1 16.3 17.5 16.8 17.9 17.4
Std Deviation (1e-4) 3.0 2.7 1.6 1.7 1.4 1.4 1.4 1.5 – 1.5 1.4 1.4 2.3 2.3 2.0 3.5 3.9 4.2 2.7 3.2 3.4
Intensity Change (Log2) – – – 0.15 -0.03 -0.13 -0.33 -0.29 – -0.33 -0.39 -0.39 0.59 0.51 0.54 0.61 0.63 0.73 0.67 0.76 0.73


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 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
Bud Site 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0
Cell Periphery 0 0 0 0 0 – 2.7 0 2.8 0 0 0 0 0 3.8
Cytoplasm -1.6 -3.0 -4.9 -9.1 -9.1 – -10.1 -9.3 -11.0 -2.0 -2.7 -1.0 -1.8 -1.7 -2.6
Endoplasmic Reticulum 0 0 3.2 3.9 3.4 – 3.8 3.4 3.7 3.4 3.9 0 0 0 0
Endosome 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
Mitochondria 0 2.3 4.1 7.9 6.9 – 8.1 9.6 11.2 0 0 0 0 0 0
Nucleus 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
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 0 0 0 3.2 3.0 – 3.2 0 2.1 0 0 0 0 0 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 – – – – – – – – – – – – – – – – – –
Actin 0.0023 0.0011 0.0023 0.0003 0.0004 0.0033 0.0065 0.0021 0.0057 0.0005 0.0157 0.0019 0.0037 0.0007 0.0041 0.005 0.0037 0.0009
Bud 0.001 0.0032 0.0013 0.001 0.0016 0.0022 0.0005 0.0005 0.0008 0.0014 0.0006 0.0005 0.0004 0.0004 0.0016 0.0016 0.0006 0.0002
Bud Neck 0.0006 0.0004 0.0007 0.001 0.0012 0.0013 0.0004 0.0004 0.0011 0.0005 0.0006 0.0014 0.0003 0.0003 0.0004 0.0008 0.002 0.0007
Bud Periphery 0.0009 0.0013 0.0008 0.0004 0.0006 0.0014 0.0002 0.0002 0.0005 0.0005 0.0003 0.0004 0.0003 0.0002 0.001 0.001 0 0.0001
Bud Site 0.0028 0.0016 0.0014 0.0004 0.0022 0.0003 0.0008 0.0007 0.0037 0.0005 0.0004 0.0002 0.0044 0.0007 0.0015 0.0058 0.0001 0
Cell Periphery 0.0009 0.0003 0.0005 0.0005 0.0001 0.0005 0.0003 0.0003 0.0004 0.0002 0.0001 0.0002 0.0004 0.0002 0.0002 0.0003 0 0
Cytoplasm 0.7388 0.8801 0.7848 0.6395 0.7814 0.7056 0.7673 0.9258 0.8238 0.7523 0.7378 0.7912 0.6765 0.9577 0.9164 0.7551 0.7542 0.8741
Cytoplasmic Foci 0.0201 0.0171 0.023 0.0374 0.0362 0.0285 0.0362 0.0141 0.0343 0.0178 0.0277 0.0436 0.0458 0.0075 0.0115 0.0285 0.1392 0.0771
Eisosomes 0.0001 0 0 0 0 0.0001 0.0001 0 0.0001 0 0.0001 0 0.0001 0 0 0 0 0
Endoplasmic Reticulum 0.089 0.0244 0.0361 0.0437 0.0082 0.0649 0.042 0.0123 0.0354 0.0525 0.0364 0.0351 0.1486 0.0098 0.0199 0.0269 0.0018 0.0137
Endosome 0.0819 0.042 0.0882 0.2168 0.1303 0.1072 0.0839 0.0288 0.0592 0.1191 0.1153 0.0777 0.0747 0.0156 0.0277 0.1238 0.083 0.0232
Golgi 0.0182 0.0114 0.0169 0.0114 0.0175 0.0333 0.0111 0.0058 0.0116 0.0049 0.0136 0.0176 0.0087 0.0014 0.0034 0.0116 0.0092 0.0015
Lipid Particles 0.0006 0.0001 0.0004 0.0002 0.0001 0.0002 0.011 0.0001 0.0021 0.0002 0.0045 0.0003 0.0018 0 0.0001 0.0024 0.0001 0.0002
Mitochondria 0.0123 0.0081 0.0109 0.0044 0.0025 0.0387 0.0033 0.0027 0.0049 0.0032 0.0079 0.0213 0.0031 0.0003 0.0011 0.0043 0.0012 0.0021
None 0.0034 0.0008 0.0009 0.0006 0.0004 0.001 0.0037 0.0005 0.0011 0.0006 0.0017 0.0006 0.0019 0.0005 0.0006 0.0015 0.0004 0.0004
Nuclear Periphery 0.0044 0.0012 0.0024 0.0028 0.0008 0.0011 0.0047 0.0005 0.0023 0.007 0.004 0.001 0.0107 0.001 0.0019 0.0086 0.0002 0.0013
Nucleolus 0.0001 0 0 0 0 0 0.0003 0 0.0001 0 0.0001 0 0.0001 0 0 0.0001 0 0
Nucleus 0.0015 0.0008 0.0011 0.0013 0.0009 0.0008 0.002 0.0005 0.001 0.0015 0.0018 0.0006 0.0018 0.0006 0.001 0.0024 0.0003 0.0011
Peroxisomes 0.0003 0.0001 0.0001 0.0001 0.0002 0.0002 0.0088 0.0001 0.0024 0.0001 0.0027 0.0008 0.0004 0 0.0001 0.0006 0.0018 0.0005
Punctate Nuclear 0.0004 0.0001 0.0002 0.0001 0.0001 0.0001 0.0047 0.0001 0.0005 0.0001 0.001 0.0001 0.0005 0.0001 0.0001 0.001 0.0002 0.0001
Vacuole 0.0151 0.0042 0.0213 0.0268 0.0111 0.0053 0.0091 0.0036 0.0069 0.0279 0.0203 0.0033 0.0126 0.0023 0.0057 0.0143 0.0008 0.0017
Vacuole Periphery 0.0053 0.0018 0.0066 0.0113 0.0043 0.0041 0.003 0.001 0.0021 0.0093 0.0075 0.0023 0.0032 0.0007 0.0015 0.0042 0.001 0.0011

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 79.8329 75.1889 65.7227 62.8215 55.4501 64.1159 67.1647 73.2699 63.1007 68.7427
Translational Efficiency 0.8779 0.7449 0.7624 0.7219 0.8097 0.8398 0.7856 0.631 0.6243 0.6406

Hit Data

Dataset Hit
Protein Concentration –
Protein Localization ✘
Gene Expression ✔
Translational Efficiency ✘
Standard name
Human Ortholog
Description Ubiquitin protease cofactor; forms deubiquitination complex with Ubp3p that coregulates anterograde and retrograde transport between the endoplasmic reticulum and Golgi compartments; null is sensitive to brefeldin A
Localization
Cell Percentages cytoplasm (98%)
Cell Cycle Regulation No
Subcompartmental Group cytoplasm-5

Bre5

Bre5


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 (Bre5-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