Standard name
Human Ortholog
Description Protein that recognizes and binds damaged DNA (with Rad23p) during NER; subunit of Nuclear Excision Repair Factor 2 (NEF2); also involved, with Rad23p, in turnover of ubiquitylated proteins; Rad4p-Rad23p heterodimer binds to promoters of DNA damage response genes to repress their transcription in the absence of DNA damage; NER stands for nucleotide excision repair
DOWNLOAD

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 0.05 0 0.08 0 0 0.05 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 0.05 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
Cytoplasm 0.09 0.17 0.22 0.18 0.37 0.34 0.28 0.28 0.23 – 0.14 0.19 0.14 0.21 0.25 0.1 0.09 0.07 0.05 0.05 0.09 0 0.06 0
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0.06 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
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 0.26 0.13 0.07 0.3 0.11 0.4 0.38 0.33 0.7 – 0.82 0.57 0.16 0 0.07 0.06 0.06 0.1 0 0 0 0 0.06 0
Nucleus 0.77 0.71 0.69 0.66 0.42 0.38 0.45 0.48 0.4 – 0.39 0.48 0.73 0.69 0.67 0.84 0.79 0.79 0.7 0.66 0.55 0.55 0.37 0.41
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 0.06 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Vac/Vac Membrane 0 0.11 0 0 0.06 0.09 0 0 0 – 0 0 0.06 0.07 0.06 0.08 0.12 0.13 0.17 0.2 0.26 0.31 0.38 0.4
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 1 0 1 0 0 0 0 – 0 0 0 0 0 0 0 0 1 1 0 0 0 1
Bud 2 0 0 2 0 1 3 1 1 – 3 2 2 1 2 1 1 1 4 3 1 4 8 11
Bud Neck 0 0 9 0 13 2 7 8 0 – 3 4 1 1 0 0 0 0 0 0 1 0 5 6
Bud Site 0 0 2 0 1 3 3 2 6 – 6 15 0 0 1 0 0 0 – – – – – –
Cell Periphery 0 0 0 0 0 0 1 0 0 – 1 0 0 0 0 0 0 0 0 0 0 0 0 0
Cytoplasm 19 21 42 11 63 60 74 49 39 – 36 52 51 78 97 22 19 14 11 7 23 3 22 12
Endoplasmic Reticulum 1 2 3 1 1 0 0 0 0 – 0 0 0 1 2 6 13 8 1 0 1 0 2 0
Endosome 0 0 0 0 0 1 0 0 0 – 0 0 1 6 0 0 2 3 0 2 1 0 4 3
Golgi 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 1 0 0 0 2 2
Mitochondria 54 16 14 18 19 71 99 58 121 – 214 158 60 17 28 13 13 19 3 2 3 2 22 12
Nucleus 159 90 130 40 72 67 120 84 70 – 102 134 276 260 262 188 169 150 167 98 137 68 143 143
Nuclear Periphery 0 0 0 0 0 0 0 0 0 – 0 0 0 2 1 1 0 1 1 0 0 0 0 1
Nucleolus 0 0 0 0 0 0 0 1 1 – 1 0 1 0 1 0 0 0 0 0 0 0 2 3
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 1 0 12 1 5 2 4 4 2 – 6 9 0 0 1 0 2 3 2 2 5 1 12 5
Vac/Vac Membrane 8 14 1 0 10 16 6 3 3 – 2 10 24 27 22 18 26 25 39 29 64 38 146 142
Unique Cell Count 207 126 188 61 170 177 264 176 173 262 278 376 378 393 223 213 189 238 150 249 123 383 354
Labelled Cell Count 244 143 214 73 185 223 317 210 243 374 384 416 393 417 249 245 224 238 150 249 123 383 354


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) 4.2 4.3 4.6 3.9 4.9 3.8 4.0 4.3 3.6 – 3.1 3.8 4.4 4.5 4.4 6.9 6.6 6.6 4.2 4.1 4.6
Std Deviation (1e-4) 0.5 0.8 0.8 0.4 1.2 1.0 1.2 1.0 1.3 – 0.7 0.9 1.1 1.3 1.2 1.2 1.2 1.1 1.7 1.3 1.8
Intensity Change (Log2) – – – -0.23 0.08 -0.29 -0.19 -0.1 -0.37 – -0.56 -0.27 -0.07 -0.02 -0.06 0.58 0.52 0.53 -0.12 -0.17 0.01


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 – – – – – – – – – – – – 3.6 4.7 4.9

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 -1.31 -0.8863 -0.9447 -0.7003 -1.2195 -0.8927 -0.1178 -0.2474 -0.3837 -0.2651 -0.3879 -0.3117 -0.3956 -0.3043 -0.5886 -0.5675 -0.7511 -0.2826
Actin 0.015 0.0006 0.0078 0.0142 0.0311 0.0028 0.0799 0.0002 0.0112 0.0019 0.0004 0.0014 0.0103 0.0003 0.0024 0.0279 0.0004 0.0032
Bud 0.0002 0.0001 0.0003 0.0013 0.0048 0.0002 0.0008 0.0002 0.0027 0.0006 0.0073 0.0002 0.0002 0.0001 0.0002 0.0003 0.0003 0.0024
Bud Neck 0.0018 0.0027 0.0007 0.0005 0.0009 0.002 0.0107 0.0006 0.0008 0.0008 0.0005 0.009 0.0006 0.0011 0.0009 0.0016 0.0064 0.0023
Bud Periphery 0.0002 0.0001 0.0006 0.0014 0.0044 0.0004 0.0017 0.0001 0.002 0.0008 0.0203 0.0003 0.0003 0.0001 0.0003 0.0006 0.0003 0.0007
Bud Site 0.0033 0.0085 0.0014 0.0014 0.0104 0.0007 0.0105 0.001 0.0119 0.0037 0.0022 0.0004 0.0014 0.0087 0.0008 0.0005 0.0033 0.0005
Cell Periphery 0.0001 0.0001 0.0002 0.0001 0.0001 0 0.0011 0.0001 0.0001 0.0004 0.0009 0.0002 0.0001 0.0001 0.0001 0.0001 0.0001 0
Cytoplasm 0.058 0.1181 0.0635 0.055 0.0798 0.0418 0.0845 0.1853 0.1378 0.1147 0.0123 0.0755 0.0768 0.1764 0.0891 0.098 0.0709 0.0689
Cytoplasmic Foci 0.0165 0.0081 0.0057 0.0042 0.011 0.0114 0.0209 0.0115 0.0138 0.0467 0.0019 0.0033 0.0132 0.003 0.007 0.0024 0.0247 0.0075
Eisosomes 0.0002 0 0.0003 0 0.0001 0.0001 0.0008 0 0.0001 0 0 0.0001 0.0002 0 0.0001 0.0005 0 0
Endoplasmic Reticulum 0.0031 0.0054 0.0051 0.0144 0.0034 0.0014 0.0113 0.0042 0.0041 0.0033 0.0022 0.0043 0.0045 0.0037 0.0032 0.0038 0.0022 0.0023
Endosome 0.0054 0.0045 0.0182 0.033 0.0225 0.0209 0.0294 0.0028 0.0059 0.0638 0.0524 0.0042 0.0205 0.0036 0.0065 0.015 0.0249 0.0073
Golgi 0.0016 0.0007 0.0024 0.0076 0.0136 0.0035 0.0114 0.0001 0.0011 0.0088 0.0051 0.0015 0.0043 0.0001 0.001 0.0033 0.0056 0.0033
Lipid Particles 0.0038 0.002 0.0064 0.001 0.0172 0.0095 0.0187 0.0003 0.0019 0.0041 0.0009 0.0007 0.0146 0.0003 0.0064 0.0011 0.0116 0.0053
Mitochondria 0.0008 0.0003 0.0117 0.0048 0.0029 0.0018 0.0081 0.0007 0.0017 0.0026 0.0137 0.017 0.0138 0.0005 0.0092 0.0112 0.0024 0.0048
None 0.2092 0.1979 0.0712 0.061 0.2453 0.0792 0.1534 0.2309 0.1828 0.0821 0.4916 0.098 0.1317 0.159 0.1364 0.128 0.2436 0.0764
Nuclear Periphery 0.0233 0.0283 0.044 0.0534 0.0311 0.0126 0.0287 0.0186 0.0374 0.0225 0.0066 0.0166 0.0163 0.0218 0.0134 0.0132 0.0101 0.017
Nucleolus 0.005 0.003 0.0053 0.0025 0.0074 0.0049 0.0043 0.0033 0.0035 0.002 0.0015 0.0075 0.006 0.0047 0.0045 0.0031 0.0051 0.006
Nucleus 0.6188 0.5698 0.7216 0.686 0.4837 0.7803 0.4746 0.5132 0.551 0.5982 0.2412 0.7227 0.6369 0.5757 0.6936 0.6622 0.5643 0.7424
Peroxisomes 0.0043 0.0008 0.0031 0.0003 0.0021 0.0046 0.0086 0.0001 0.0018 0.0022 0.0002 0.0003 0.0159 0.0001 0.0026 0.001 0.0041 0.0059
Punctate Nuclear 0.0271 0.0461 0.0215 0.0536 0.026 0.0201 0.0305 0.0235 0.0239 0.0242 0.0013 0.0337 0.0294 0.0362 0.0175 0.0231 0.0167 0.0425
Vacuole 0.0018 0.0026 0.0073 0.0021 0.0013 0.0012 0.0069 0.0029 0.0033 0.0149 0.0895 0.0023 0.0021 0.0039 0.0038 0.0022 0.0025 0.001
Vacuole Periphery 0.0005 0.0004 0.002 0.0019 0.0007 0.0006 0.0033 0.0006 0.0011 0.0015 0.0481 0.0006 0.001 0.0005 0.0011 0.001 0.0005 0.0004

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 2.6793 1.3065 4.5241 4.1797 2.2107 1.9475 4.183 6.0923 5.5846 3.1856
Translational Efficiency – – – – – – – – – –

Hit Data

Dataset Hit
Protein Concentration ✘
Protein Localization ✘
Gene Expression ✔
Translational Efficiency –

Micrographs

Cell Count

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
2121 1540 1543 106 2160 1323 1654 9 4281 2863 3197 115

Protein Abundance

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
Mean 637.71 755.92 947.07 955.94 667.82 694.04 946.06 861.63 652.90 727.33 946.55 948.56
Standard Deviation 88.44 104.21 124.21 110.41 88.99 102.14 124.71 92.60 89.98 107.77 124.47 112.02
Intensity Change Log 2 — 0.245333 0.570571 0.584020 — 0.055560 0.502472 0.367609 — 0.151377 0.536138 0.477375

Localization Score (DeepLoc)

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
Actin 0.000122 0.000207 0.000563 0.001046 0.000077 0.000567 0.000496 0.001419 0.000100 0.000373 0.000528 0.001075
Bud Neck 0.002767 0.004525 0.013009 0.011112 0.003342 0.004689 0.014918 0.003639 0.003057 0.004601 0.013996 0.010527
Bud Site 0.000848 0.001307 0.001977 0.002712 0.000732 0.002035 0.003316 0.001103 0.000790 0.001644 0.002670 0.002586
Cell Periphery 0.000167 0.000155 0.000105 0.000172 0.000156 0.000233 0.000156 0.000143 0.000162 0.000191 0.000131 0.000170
Cytoplasm 0.118440* 0.097347 0.010221 0.027329 0.116620* 0.108224* 0.027723 0.009472 0.117522* 0.102373* 0.019276 0.025931
Cytoplasmic Foci 0.009161 0.017749 0.000100 0.000154 0.010758 0.022587 0.000500 0.000377 0.009967 0.019985 0.000307 0.000172
Eisosomes 0.000045 0.000036 0.000020 0.000042 0.000022 0.000046 0.000023 0.000046 0.000033 0.000041 0.000022 0.000042
Endoplasmic Reticulum 0.000472 0.002818 0.005330 0.013061 0.001223 0.002790 0.005916 0.016997 0.000851 0.002805 0.005633 0.013369
Endosome 0.000878 0.001605 0.000338 0.000743 0.000637 0.002389 0.001230 0.000792 0.000757 0.001968 0.000799 0.000747
Golgi 0.000242 0.000567 0.000059 0.000096 0.000104 0.001508 0.000906 0.000107 0.000172 0.001002 0.000497 0.000097
Lipid Particles 0.001035 0.002914 0.000158 0.000502 0.001339 0.005088 0.000238 0.001159 0.001188 0.003919 0.000199 0.000554
Mitochondria 0.001695 0.003297 0.001291 0.033266 0.000998 0.005811 0.001521 0.001024 0.001343 0.004459 0.001410 0.030743
Mitotic Spindle 0.001812 0.003909 0.001850 0.024540 0.001126 0.001141 0.010836 0.000899 0.001466 0.002630 0.006499 0.022689
None 0.022562 0.006354 0.002437 0.009146 0.009567 0.010089 0.005967 0.003850 0.016005 0.008080 0.004263 0.008731
Nuclear Periphery 0.000895 0.001843 0.000948 0.001411 0.001239 0.001288 0.002005 0.002406 0.001068 0.001587 0.001495 0.001488
Nuclear Periphery Foci 0.000210 0.000692 0.000125 0.000336 0.000249 0.000742 0.000274 0.000623 0.000230 0.000715 0.000202 0.000358
Nucleolus 0.004272 0.003919 0.001410 0.001436 0.003425 0.005742 0.001125 0.002473 0.003845 0.004761 0.001262 0.001517
Nucleus 0.831798* 0.842436* 0.956812* 0.859337* 0.845577* 0.812760* 0.913346* 0.939808* 0.838751* 0.828722* 0.934325* 0.865635*
Peroxisomes 0.001071 0.002442 0.000098 0.000149 0.000789 0.003930 0.000098 0.000212 0.000929 0.003129 0.000098 0.000154
Vacuole 0.001295 0.005317 0.003007 0.012934 0.001882 0.007707 0.007394 0.013272 0.001591 0.006421 0.005277 0.012961
Vacuole Periphery 0.000212 0.000561 0.000144 0.000476 0.000138 0.000634 0.002012 0.000180 0.000174 0.000595 0.001110 0.000453

Localization Changes (T-score)

R1 R2 R1 & R2
UBP2_WT UBP14_WT UBP2UBP14_WT UBP2UBP14_UBP2 UBP2UBP14_UBP14 UBP2_WT UBP14_WT UBP2UBP14_WT UBP2UBP14_UBP2 UBP2UBP14_UBP14 UBP2_WT UBP14_WT UBP2UBP14_WT UBP2UBP14_UBP2 UBP2UBP14_UBP14
Actin -1.66 -8.36 -9.07 -8.73 -4.17 NaN NaN NaN NaN NaN -1.73 -14.79 -10.37 -4.79 -4.77
Bud Neck -3.51 -10.92 -7.74 -6.57 -0.46 NaN NaN NaN NaN NaN -3.77 -16.98 -7.75 -6.62 0.63
Bud Site -1.80 -4.10 -4.76 -4.10 -2.66 NaN NaN NaN NaN NaN -4.27 -8.21 -5.03 -3.73 -1.38
Cell Periphery 0.46 3.56 0.00 -0.39 -2.90 NaN NaN NaN NaN NaN -1.48 3.47 -0.16 1.07 -2.35
Cytoplasm 3.49 25.18 14.44 11.22 -2.39 NaN NaN NaN NaN NaN 3.46 32.11 17.15 14.02 -0.72
Cytoplasmic Foci -5.06 11.75 11.50 11.07 -1.83 NaN NaN NaN NaN NaN -7.55 16.10 15.97 16.48 -0.57
Eisosomes 0.57 2.07 -0.91 -2.43 -4.94 NaN NaN NaN NaN NaN -1.98 0.59 -2.95 -1.98 -4.32
Endoplasmic Reticulum -8.75 -18.97 -7.03 -5.51 -3.41 NaN NaN NaN NaN NaN -10.48 -27.83 -7.42 -6.11 -3.38
Endosome -2.28 2.22 -0.18 2.26 -2.91 NaN NaN NaN NaN NaN -4.52 0.54 -0.95 3.50 -1.37
Golgi -1.18 2.06 1.32 1.68 -2.94 NaN NaN NaN NaN NaN -3.35 -0.46 1.00 3.59 0.80
Lipid Particles -6.33 7.39 2.07 7.20 -3.06 NaN NaN NaN NaN NaN -7.35 10.92 3.53 8.50 -2.81
Mitochondria -1.84 0.19 -1.01 -0.83 -1.02 NaN NaN NaN NaN NaN -4.44 -2.00 -1.05 -0.68 -0.99
Mitotic Spindle -1.66 -1.69 -1.89 -1.71 -1.72 NaN NaN NaN NaN NaN -1.65 -5.54 -1.92 -1.81 -1.37
None 7.99 10.36 6.26 0.09 -2.14 NaN NaN NaN NaN NaN 6.61 11.27 5.21 1.19 -1.34
Nuclear Periphery -5.11 -2.78 -3.78 -0.26 -2.75 NaN NaN NaN NaN NaN -4.86 -11.65 -3.39 -1.65 0.00
Nuclear Periphery Foci -2.09 0.35 -1.83 0.59 -2.18 NaN NaN NaN NaN NaN -2.65 -0.37 -2.04 0.29 -1.98
Nucleolus 0.78 6.35 4.59 4.43 -0.96 NaN NaN NaN NaN NaN -1.92 8.26 4.62 5.97 -1.35
Nucleus -1.01 -19.16 -1.29 -0.89 4.32 NaN NaN NaN NaN NaN 2.05 -18.80 -1.30 -1.92 3.06
Peroxisomes -2.42 2.54 2.39 4.89 -1.54 NaN NaN NaN NaN NaN -4.53 3.78 3.53 7.16 -1.73
Vacuole -6.74 -6.49 -3.07 -2.65 -2.74 NaN NaN NaN NaN NaN -8.59 -12.61 -3.21 -2.63 -2.12
Vacuole Periphery -2.08 0.76 -0.29 1.72 -0.88 NaN NaN NaN NaN NaN -3.93 -1.29 -0.68 2.57 1.00
Standard name
Human Ortholog
Description Protein that recognizes and binds damaged DNA (with Rad23p) during NER; subunit of Nuclear Excision Repair Factor 2 (NEF2); also involved, with Rad23p, in turnover of ubiquitylated proteins; Rad4p-Rad23p heterodimer binds to promoters of DNA damage response genes to repress their transcription in the absence of DNA damage; NER stands for nucleotide excision repair
Localization
Cell Percentages nucleus (96%)
Cell Cycle Regulation No
Subcompartmental Group nucleus-3

Rad4

Rad4


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 (Rad4-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