Standard name
Human Ortholog
Description AAA ATPase; subunit of polyUb-selective segregase complex involved in ERAD, INM-associated degradation (INMAD), mitotic spindle disassembly, macroautophagy, PMN, ribosome-associated degradation, ribophagy, homotypic ER membrane fusion, SCF complex disassembly, cell wall integrity during heat stress, and telomerase regulation; mobilizes membrane-anchored transcription factors by regulated Ub/proteasome-dependent processing (RUP); human ortholog VCP complements a cdc48 mutant

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 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 0.05 0 0 0 0 0 0 0 0 0 0 0 0
Cytoplasm 0.86 0.81 0.55 0.58 0.66 0.69 0.57 0.57 0.64 0.58 0.53 0.48 0.65 0.63 0.62 0.75 0.75 0.54 0.69 0.54 0.39 0.2 0.2
Endoplasmic Reticulum 0.18 0.21 0.41 0.36 0.33 0.28 0.39 0.32 0.23 0.23 0.11 0.2 0.34 0.28 0.22 0 0 0.36 0.15 0.33 0.46 0.56 0.48
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 0.12 0 0 0 0 0.09 0.12
Mitochondria 0 0 0 0 0 0 0 0 0 0 0 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 0.06 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 0.07 0.08 0 0.05 0 0.1 0.07 0.11 0.22 0.25 0 0.12 0.19 0.25 0.25 0 0.06 0.05 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 0 2 3 3 4 12 6 0 0 0 0 0 1 3 1 2 5 9
Bud 4 1 4 1 1 0 2 0 0 4 2 3 3 0 1 0 0 2 9 1 2 5 5
Bud Neck 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
Cell Periphery 1 1 10 11 14 12 5 6 7 8 10 7 1 1 1 0 0 0 0 0 0 0 0
Cytoplasm 275 357 239 145 205 189 211 220 155 156 109 109 201 201 184 12 12 191 373 285 137 69 91
Endoplasmic Reticulum 58 95 176 89 102 76 145 121 56 61 22 44 105 88 67 0 0 128 82 171 164 198 214
Endosome 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 1 3 1 8 19
Golgi 0 0 0 2 3 1 3 9 4 8 5 9 1 2 2 0 2 1 2 1 3 31 51
Mitochondria 0 0 0 0 0 0 0 0 0 1 4 1 0 0 0 0 0 0 0 1 1 0 2
Nucleus 0 0 0 1 0 2 0 2 3 3 2 5 0 0 2 0 0 6 14 8 1 0 0
Nuclear Periphery 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 10 11 4 3 3
Nucleolus 0 0 0 2 0 0 1 2 3 2 9 4 0 0 1 1 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 3 6
SpindlePole 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 1 1 9
Vac/Vac Membrane 2 8 31 21 13 14 14 40 18 30 46 56 9 39 56 4 4 10 35 27 21 13 19
Unique Cell Count 318 442 434 250 312 273 368 383 241 267 205 225 307 320 299 16 16 355 543 526 357 353 446
Labelled Cell Count 340 462 460 272 339 294 383 403 249 277 221 244 320 331 314 17 18 355 543 526 357 353 446


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) 51.4 51.6 40.6 38.8 47.1 49.2 52.6 51.2 47.2 42.7 39.7 43.6 55.5 58.1 56.2 46.4 80.0 44.5 48.2 52.2
Std Deviation (1e-4) 10.0 12.2 9.8 9.0 12.6 13.2 12.1 13.4 13.2 12.3 13.0 12.7 11.7 13.0 12.6 27.8 20.6 8.9 12.0 12.1
Intensity Change (Log2) -0.06 0.22 0.28 0.37 0.34 0.22 0.07 -0.03 0.1 0.45 0.52 0.47 0.19 0.98 0.13 0.25 0.37


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 1.5 1.7 1.6 -1.0 -0.8 0.5 0.6 1.7 0.6 0 0 0 0 0
Cytoplasm 0.7 2.9 3.8 0.6 0.7 2.3 0.9 -0.4 -1.6 2.8 2.1 1.7 1.6 1.6
Endoplasmic Reticulum -1.3 -2.2 -3.4 -0.3 -2.7 -4.5 -4.8 -7.6 -5.4 -1.8 -3.7 -5.1 -3.3 -3.3
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 0 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
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 0.6 -1.7 -1.1 -2.0 1.7 0.2 1.9 5.5 6.4 -2.5 2.4 4.8 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 63.4684 76.7153 72.8325 62.5115 62.4903 75.015 73.7544 91.6667 81.0119 73.9792 78.9001 84.9777 66.0756 85.1031 80.4133 74.4077 76.7496 80.7251
Actin 0.0026 0.001 0.0062 0.0121 0.0056 0.0004 0.0068 0.0007 0.0013 0.0071 0.0007 0.0004 0.016 0.0001 0.0054 0.0026 0.0002 0.0005
Bud 0.0007 0.0001 0.0001 0.0002 0.0003 0 0.0003 0.0005 0.0002 0.0001 0.0001 0.0001 0.0015 0.0001 0.0001 0.0001 0 0.0001
Bud Neck 0.0002 0.0002 0.0001 0.0002 0.0007 0.0017 0.0002 0.0002 0.0002 0.0001 0.0004 0.0008 0.0043 0.0002 0.0002 0.0002 0.0003 0.0009
Bud Periphery 0.0003 0 0.0003 0.0002 0.0002 0 0.0003 0.0002 0.0001 0.0001 0.0001 0 0.0012 0.0002 0.0001 0.0002 0 0.0001
Bud Site 0.0005 0 0.0002 0.0003 0.0006 0 0.0005 0.0002 0.0005 0.0001 0.0001 0 0.0045 0.0001 0 0.0002 0.0001 0
Cell Periphery 0.0003 0.0002 0.0002 0 0.0002 0.0001 0.0005 0.0008 0.0005 0.0001 0.0001 0.0003 0.0022 0.0009 0.0008 0.0026 0.0002 0.0006
Cytoplasm 0.0317 0.075 0.0386 0.0314 0.0538 0.0424 0.028 0.0899 0.0576 0.047 0.0678 0.0426 0.0343 0.0828 0.0343 0.0442 0.051 0.0351
Cytoplasmic Foci 0.0021 0 0.0012 0.0006 0.0101 0 0.0013 0.0001 0.0076 0.0001 0.0002 0.0001 0.015 0.0002 0.0016 0.0077 0.0141 0.0032
Eisosomes 0.0001 0 0.0001 0 0 0 0.0005 0 0.0001 0.0001 0 0 0.0003 0 0.0001 0.0003 0.0002 0
Endoplasmic Reticulum 0.0016 0.0018 0.0005 0.0079 0.0062 0.0017 0.0025 0.0011 0.0016 0.0011 0.0013 0.0007 0.0041 0.0006 0.0025 0.0011 0.0013 0.0016
Endosome 0.004 0.0011 0.0051 0.0186 0.0112 0.0001 0.0022 0.0001 0.0028 0.0011 0.0002 0.0001 0.0103 0.0001 0.0006 0.002 0.0003 0.0006
Golgi 0.0004 0.0002 0.0009 0.0037 0.0013 0 0.0007 0 0.0005 0.0005 0 0 0.0027 0 0.0003 0.0009 0.0001 0.0001
Lipid Particles 0.0011 0.0001 0.0009 0.0006 0.001 0 0.0009 0.0001 0.001 0.0001 0.0001 0 0.0092 0.0001 0.0011 0.0067 0.0056 0.0011
Mitochondria 0.0064 0.0007 0.0028 0.0035 0.0043 0.0002 0.0039 0.0009 0.0012 0.0022 0.001 0.0006 0.0065 0.0011 0.0048 0.0027 0.003 0.0006
None 0.0063 0.0001 0.0002 0.0004 0.0031 0 0.003 0.0006 0.0034 0.0005 0.0002 0.0002 0.0075 0.0002 0.0011 0.0032 0.0081 0.0019
Nuclear Periphery 0.3487 0.2871 0.3345 0.3545 0.3398 0.2796 0.3109 0.2581 0.2826 0.3193 0.2727 0.2202 0.3163 0.2124 0.2966 0.2871 0.2649 0.271
Nucleolus 0.0077 0.0016 0.0042 0.0004 0.0063 0.0007 0.013 0.005 0.0077 0.0208 0.006 0.0116 0.015 0.0074 0.0052 0.0131 0.017 0.0085
Nucleus 0.5692 0.6281 0.5977 0.5606 0.544 0.6702 0.6134 0.6384 0.6228 0.5946 0.6442 0.7164 0.5156 0.6846 0.6357 0.6011 0.6255 0.6688
Peroxisomes 0.0002 0 0.0018 0.0001 0.0003 0 0.0002 0 0.0002 0 0 0 0.0062 0 0.0001 0.0033 0.0004 0.0001
Punctate Nuclear 0.0035 0.0004 0.0004 0.0015 0.0052 0.0004 0.0052 0.0007 0.0059 0.0027 0.002 0.0025 0.0063 0.0006 0.0008 0.0076 0.0039 0.0016
Vacuole 0.0049 0.0009 0.0017 0.0011 0.0026 0.001 0.0026 0.0013 0.0012 0.0005 0.0013 0.0016 0.0129 0.0035 0.0044 0.0077 0.0017 0.0021
Vacuole Periphery 0.0077 0.0014 0.002 0.0021 0.0033 0.0015 0.0031 0.0009 0.0012 0.0018 0.0015 0.0018 0.0082 0.0048 0.0042 0.0053 0.0021 0.0014

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 440.6139 450.7126 494.3763 533.245 484.8566 425.1999 477.8844 494.7801 587.4321 476.504
Translational Efficiency 1.9505 1.8765 1.6896 1.8665 1.5514 1.9659 1.7996 1.6836 1.55 1.6148

Hit Data

Dataset Hit
Protein Concentration
Protein Localization
Gene Expression
Translational Efficiency
Standard name
Human Ortholog
Description AAA ATPase; subunit of polyUb-selective segregase complex involved in ERAD, INM-associated degradation (INMAD), mitotic spindle disassembly, macroautophagy, PMN, ribosome-associated degradation, ribophagy, homotypic ER membrane fusion, SCF complex disassembly, cell wall integrity during heat stress, and telomerase regulation; mobilizes membrane-anchored transcription factors by regulated Ub/proteasome-dependent processing (RUP); human ortholog VCP complements a cdc48 mutant
Localization
Cell Percentages cytoplasm (44%), ER (12%), mixed (44%)
Cell Cycle Regulation No
Subcompartmental Group N/A

Cdc48

Cdc48


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 (Cdc48-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