Standard name
Human Ortholog
Description 5' to 3' DNA helicase; involved in nucleotide excision repair and transcription; subunit of RNA polII initiation factor TFIIH and of Nucleotide Excision Repair Factor 3 (NEF3); homolog of human XPD protein; mutant has aneuploidy tolerance; 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
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 0.06 0 0 0 0.06 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 0 0 0 0 0 0 0 0 0 0 0 0.06 0.11 0.15 0.07 0.08 0.1 0 0 0 0 0 0
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 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 0 0.05 0.06 0 0.2 0.28 0.17 0.56 0.48 0.6 0.34 0.13 0 0 0 0 0 0 0 0 0 0 0
Nucleus 0.91 0.91 0.97 0.97 0.96 0.88 0.85 0.88 0.79 0.78 0.84 0.89 0.86 0.87 0.81 0.88 0.87 0.86 0.83 0.86 0.84 0.72 0.63 0.58
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 0.15 0.08 0 0 0 0 0.06 0.06 0.1 0.08 0.08 0.09 0.09 0.08 0.09 0 0 0 0.09 0.05 0.06 0.11 0.18 0.17
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 0 0 0 0 0 0 0 0 0 0 0 0 0 0.08 0.11 0.13
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 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0
Bud 0 0 0 0 0 1 2 3 9 3 2 3 0 0 0 0 1 0 4 2 0 1 1 5
Bud Neck 0 0 0 0 0 1 2 2 0 2 1 2 0 0 0 0 0 0 0 0 0 0 2 0
Bud Site 1 1 0 0 1 1 15 4 12 11 12 3 0 0 0 0 0 0 – – – – – –
Cell Periphery 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Cytoplasm 5 6 2 2 5 5 7 8 9 11 6 3 11 22 35 25 24 32 1 0 0 0 0 0
Endoplasmic Reticulum 0 1 0 0 0 0 0 0 0 1 0 0 2 2 0 3 5 8 0 0 0 0 3 3
Endosome 0 3 0 1 0 0 0 0 0 0 0 0 0 1 0 5 4 3 5 4 1 0 1 4
Golgi 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 2 1 0 1 0 0
Mitochondria 13 9 8 9 4 33 73 45 176 134 112 70 23 1 9 10 5 14 5 2 2 1 1 3
Nucleus 426 288 144 139 195 146 221 229 249 219 157 185 156 180 189 330 265 283 416 287 131 99 156 132
Nuclear Periphery 2 1 1 0 0 0 1 1 4 2 0 0 0 1 4 2 3 1 0 0 0 0 0 1
Nucleolus 69 24 5 3 5 5 15 15 33 23 15 19 16 16 20 5 9 13 44 16 9 15 44 39
Peroxisomes 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 1 1 0 0 0 0 0 0 0
SpindlePole 1 1 2 4 2 2 10 5 6 1 3 2 2 1 3 0 2 2 3 0 0 2 4 2
Vac/Vac Membrane 12 9 0 1 1 1 1 1 1 2 2 0 1 2 2 11 10 7 12 13 5 11 26 30
Unique Cell Count 470 316 148 143 203 165 259 259 315 280 188 208 182 207 232 376 306 329 500 332 157 139 249 230
Labelled Cell Count 529 344 162 159 214 195 347 313 499 409 310 287 211 227 262 392 330 363 500 332 157 139 249 230


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) 7.1 7.0 5.8 5.5 6.1 4.6 4.8 5.0 4.1 4.1 3.8 4.3 6.4 6.9 6.6 8.6 9.1 8.6 6.4 6.5 6.9
Std Deviation (1e-4) 1.0 1.1 0.7 0.9 1.2 0.8 1.0 0.7 0.8 0.8 1.0 0.8 1.3 1.7 1.6 1.7 1.8 1.9 1.7 1.3 1.7
Intensity Change (Log2) – – – -0.06 0.09 -0.31 -0.25 -0.21 -0.5 -0.5 -0.59 -0.41 0.14 0.25 0.2 0.58 0.66 0.58 0.15 0.17 0.26


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 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 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Cytoplasm 0 0 0 0 0 0 0 0 0 2.2 3.4 4.4 2.5 2.8 3.3
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
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 0.3 -1.7 0 0 3.5 0 0 0 0 2.2 0 -0.7 -1.6 0 -0.6
Nucleus 0 -0.6 -3.0 -3.8 -3.1 -5.1 -5.2 -4.1 -2.9 -3.6 -3.4 -4.6 -3.3 -3.6 -3.7
Nuclear Periphery 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Nucleolus 0 0 0 0 1.1 0 0 0 0 2.0 1.7 2.0 0 0 0.3
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 0 0 0 0 0 0 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 1.1436 1.2154 1.1855 1.2404 0.7858 0.9459 2.847 3.178 2.9458 2.2874 2.2087 2.6586 2.3198 2.3793 2.2356 2.1534 1.8834 2.1207
Actin 0.0585 0 0.0084 0.0204 0.011 0.0105 0.0251 0 0.0017 0.0012 0.0064 0.001 0.0141 0 0.0074 0.0066 0.0049 0.0012
Bud 0.001 0 0.0001 0.0066 0.001 0.0001 0.0005 0 0.0006 0.0005 0.0025 0 0.0004 0 0 0.0001 0.0003 0.0001
Bud Neck 0.0078 0.0002 0.0001 0.0009 0.0018 0.0013 0.001 0.0001 0.0005 0.0004 0.007 0.0006 0.0008 0 0.0002 0.0002 0.001 0.0011
Bud Periphery 0.002 0 0.0001 0.0093 0.0039 0.0003 0.001 0 0.0005 0.0037 0.0083 0.0001 0.0008 0 0.0001 0.0003 0.0004 0.0003
Bud Site 0.0204 0.0001 0.0001 0.0344 0.004 0.0004 0.0019 0 0.0014 0.0006 0.004 0.0001 0.0019 0 0.0004 0.0005 0.0016 0.0003
Cell Periphery 0.001 0 0 0.0005 0.0008 0.0001 0.0002 0 0.0001 0.0008 0.0008 0 0.0006 0 0.0001 0.0001 0 0.0001
Cytoplasm 0.0133 0.0004 0.0002 0.0003 0.0007 0.0003 0.0032 0 0.0001 0.0011 0.0024 0.0001 0.0038 0 0.0001 0.0094 0.0008 0.0007
Cytoplasmic Foci 0.023 0.0032 0.0015 0.0013 0.0092 0.0016 0.0134 0 0.0017 0.0012 0.0049 0.0007 0.0104 0 0.0003 0.0043 0.0247 0.0014
Eisosomes 0.0005 0 0 0.0001 0.0003 0.0001 0.0002 0 0 0.0001 0.0001 0 0.0003 0 0 0.0002 0 0
Endoplasmic Reticulum 0.0052 0.0001 0.0005 0.0002 0.0013 0.0008 0.0037 0 0.0001 0.005 0.0029 0.0001 0.0028 0 0.0001 0.0087 0.0002 0.0009
Endosome 0.0342 0.0034 0.0093 0.0011 0.0215 0.006 0.0175 0 0.0013 0.0102 0.0259 0.0013 0.0139 0 0.0015 0.0313 0.009 0.0072
Golgi 0.0103 0.0002 0.0029 0.0017 0.0105 0.0052 0.0063 0 0.0022 0.001 0.0053 0.0017 0.006 0 0.0003 0.0033 0.0077 0.0017
Lipid Particles 0.0153 0.0008 0.002 0.0008 0.0386 0.0046 0.0065 0 0.0018 0.0056 0.0095 0.0014 0.0183 0 0.0018 0.013 0.0157 0.0047
Mitochondria 0.0223 0.0002 0.0006 0.0028 0.0229 0.0214 0.0023 0.0001 0.0079 0.0245 0.016 0.007 0.015 0 0.0013 0.0108 0.0035 0.0015
None 0.0047 0 0.0002 0.0001 0.0011 0.0003 0.0013 0 0.0001 0.0007 0.0007 0 0.0041 0 0.0001 0.0027 0.0009 0.0016
Nuclear Periphery 0.0266 0.0009 0.001 0.0004 0.0122 0.0031 0.0144 0.0004 0.0011 0.0357 0.0125 0.0021 0.0133 0.0001 0.0021 0.049 0.0033 0.0161
Nucleolus 0.0216 0.0242 0.0089 0.0133 0.0704 0.0472 0.0273 0.0165 0.013 0.0076 0.0527 0.049 0.0235 0.0117 0.0117 0.0129 0.0564 0.0613
Nucleus 0.695 0.9624 0.9629 0.9033 0.7586 0.8931 0.855 0.9817 0.9623 0.8859 0.7948 0.9314 0.8435 0.9876 0.9689 0.831 0.8305 0.8923
Peroxisomes 0.0079 0.0001 0.0005 0.0009 0.0065 0.0015 0.0097 0 0.0014 0.0003 0.0028 0.0005 0.0067 0 0.0002 0.0006 0.0164 0.0006
Punctate Nuclear 0.0194 0.0034 0.0005 0.0005 0.0181 0.0013 0.0049 0.001 0.0003 0.0027 0.0106 0.0026 0.0142 0.0005 0.001 0.0082 0.0221 0.0049
Vacuole 0.0063 0.0002 0.0002 0.0009 0.0035 0.0004 0.003 0.0001 0.0016 0.0061 0.0251 0.0001 0.0034 0 0.0016 0.0038 0.0003 0.0009
Vacuole Periphery 0.0037 0 0.0002 0.0002 0.002 0.0006 0.0015 0 0.0004 0.0051 0.0048 0.0001 0.0022 0 0.0009 0.003 0.0002 0.001

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 21.7187 21.1035 21.9236 21.4636 20.5073 15.1003 20.5909 23.1864 20.8234 21.5121
Translational Efficiency 0.6659 0.6033 0.5813 0.5973 0.5837 0.8208 0.6201 0.3827 0.5466 0.5842

Hit Data

Dataset Hit
Protein Concentration ✘
Protein Localization ✘
Gene Expression ✔
Translational Efficiency ✘
Standard name
Human Ortholog
Description 5' to 3' DNA helicase; involved in nucleotide excision repair and transcription; subunit of RNA polII initiation factor TFIIH and of Nucleotide Excision Repair Factor 3 (NEF3); homolog of human XPD protein; mutant has aneuploidy tolerance; protein abundance increases in response to DNA replication stress
Localization
Cell Percentages nucleus (98%)
Cell Cycle Regulation No
Subcompartmental Group nucleus-4

Rad3

Rad3


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 (Rad3-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