Standard name
Human Ortholog
Description Ribosomal lysine methyltransferase; specific for monomethylation of Rpl42ap and Rpl42bp (lysine 40); nuclear SET domain containing protein; relocalizes to the cytosol in response to hypoxia
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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 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Cytoplasm 0 0.06 0 0 0 0 0 – 0 0 0 0 0.13 0.11 0.13 0.06 0.07 0.11 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
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 0.07 0 – 0.19 0.16 0.4 0.22 0 0 0 0 0 0 0 0 0 0 0 0
Nucleus 0.94 0.89 0.99 0.96 0.95 0.93 0.94 – 0.9 0.92 0.84 0.86 0.85 0.89 0.81 0.83 0.85 0.78 0.92 0.88 0.9 0.88 0.75 0.72
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 0.11 0 0 0 0 0 – 0 0 0 0 0 0 0 0.06 0.05 0.09 0 0.07 0.07 0 0.18 0.2
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 1 1 – 1 3 4 2 0 0 0 0 0 0 2 1 1 0 1 0
Bud Neck 0 0 0 0 1 0 0 – 0 3 1 0 0 0 0 0 0 0 0 0 0 0 0 0
Bud Site 0 0 0 0 0 1 0 – 3 2 13 9 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 7 6 0 7 14 7 15 – 8 9 17 24 7 20 29 6 13 25 1 1 0 1 1 1
Endoplasmic Reticulum 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 2 1 6 1 0 0 0 0 0
Endosome 0 0 0 0 0 1 1 – 0 0 0 0 0 0 3 2 0 2 1 0 0 0 0 1
Golgi 0 0 0 0 1 0 0 – 0 0 0 0 0 0 2 0 0 2 1 0 0 0 0 0
Mitochondria 6 1 0 0 1 29 34 – 84 77 174 123 0 0 0 2 2 2 1 0 0 0 1 1
Nucleus 191 97 87 267 541 411 748 – 402 453 367 486 47 165 188 91 161 174 185 97 82 30 93 94
Nuclear Periphery 0 0 0 0 5 2 4 – 2 1 2 4 0 2 3 0 1 4 0 0 0 0 0 0
Nucleolus 2 2 0 1 2 0 7 – 7 5 9 7 0 2 6 4 6 5 1 0 0 0 3 3
Peroxisomes 0 0 0 0 0 0 0 – 0 0 0 0 0 0 2 0 0 0 0 0 0 0 0 0
SpindlePole 0 0 0 2 3 1 4 – 3 3 3 7 1 3 6 0 1 1 0 0 0 0 0 1
Vac/Vac Membrane 5 12 1 5 14 13 17 – 5 7 9 9 1 3 8 6 10 19 6 7 6 1 22 25
Unique Cell Count 204 109 88 277 569 443 792 445 495 439 562 55 186 231 109 189 222 202 111 92 34 124 132
Labelled Cell Count 211 118 88 282 582 466 831 515 563 599 671 56 195 247 113 195 240 202 111 92 34 124 132


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) 6.5 7.6 6.6 7.2 7.3 5.8 6.0 – 4.9 5.2 4.4 4.9 8.3 8.2 7.9 10.7 11.7 11.4 – 6.2 7.7
Std Deviation (1e-4) 1.1 1.9 1.2 1.2 1.3 1.0 1.0 – 1.0 0.9 0.9 1.0 2.0 1.7 1.7 2.5 2.8 8.5 – 1.0 1.7
Intensity Change (Log2) – – – 0.13 0.15 -0.18 -0.13 – -0.42 -0.34 -0.56 -0.42 0.33 0.31 0.27 0.7 0.83 0.8 – -0.07 0.23


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 0 0 0 0 0 0 0 0 0
Cytoplasm 0 0 0 0 – 0 0 0 0 0 3.2 3.5 0 0 3.3
Endoplasmic Reticulum 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
Golgi 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0
Mitochondria 0 0 0 0 – 4.4 4.0 0 4.9 0 0 0 0 0 0
Nucleus -1.2 -1.6 -2.2 -1.8 – -2.7 -2.4 -3.8 -3.3 -3.2 -2.9 -4.0 -3.6 -3.5 -4.5
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 0 – 0 0 0 0 0 0 0 0 0 2.4

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 2.5931 2.5367 2.3361 2.0193 2.1719 2.1959 2.247 2.4763 2.2045 2.1393 1.7189 2.0691 1.1971 1.5305 1.088 1.5311 1.056 0.753
Actin 0.0078 0 0.0067 0 0 0.0015 0.0268 0 0.0055 0.0007 0.0226 0.0038 0.0383 0 0.0168 0.0258 0 0
Bud 0.0001 0 0.0003 0 0 0 0.0004 0.0001 0.0004 0.0003 0.0002 0.0004 0.0003 0 0.0004 0.0005 0 0
Bud Neck 0.0003 0.0002 0.0018 0.0002 0.0002 0.0008 0.0012 0.0002 0.0006 0.0001 0.0009 0.001 0.0004 0.0001 0.0051 0.0013 0.0001 0.0007
Bud Periphery 0.0002 0 0.0007 0 0 0.0001 0.0006 0.0001 0.0007 0.0004 0.0004 0.0006 0.0005 0.0001 0.0008 0.0005 0 0.0001
Bud Site 0.0002 0.0001 0.0022 0 0 0.0001 0.0013 0.0003 0.0049 0.0003 0.0012 0.0017 0.0009 0.0001 0.0062 0.0089 0 0.0001
Cell Periphery 0 0 0.0005 0 0 0 0.0002 0.0001 0.0003 0.0001 0.0001 0.0001 0.0003 0.0001 0.0003 0.0001 0 0
Cytoplasm 0.0017 0.0004 0.0003 0.0001 0.0001 0.0002 0.0016 0.0001 0.0005 0.0001 0.0028 0.0002 0.0009 0.0004 0.0013 0.0005 0 0.0001
Cytoplasmic Foci 0.0035 0 0.0001 0 0 0.0002 0.0043 0.0018 0.0019 0.0004 0.0192 0.0046 0.0195 0 0.0053 0.0038 0 0
Eisosomes 0 0 0.0001 0 0 0 0.0004 0 0.0001 0.0001 0.0014 0 0.0003 0 0.0001 0.0002 0 0
Endoplasmic Reticulum 0.0007 0.0003 0.0003 0 0 0.0004 0.0026 0 0.0002 0 0.0022 0.0001 0.0035 0.0001 0.0007 0.0003 0 0
Endosome 0.0029 0.0001 0.0007 0 0 0.0012 0.0099 0.0002 0.0012 0.0002 0.0259 0.0034 0.0195 0.0002 0.0073 0.0031 0 0
Golgi 0.0023 0 0.0005 0 0 0.0003 0.0022 0.0001 0.0015 0.0002 0.006 0.0033 0.0136 0 0.0025 0.0038 0 0
Lipid Particles 0.0032 0 0.0003 0 0 0.0004 0.003 0.0031 0.0048 0.0006 0.0319 0.0034 0.0103 0 0.0087 0.0029 0 0
Mitochondria 0.0007 0.0002 0.0007 0.0003 0.0002 0.0003 0.0026 0.0012 0.0125 0.0612 0.0033 0.0048 0.0067 0.0005 0.0099 0.0011 0.0001 0.0001
None 0.0008 0 0.0001 0 0 0.0001 0.0026 0.0001 0.0003 0.0001 0.0317 0 0.0016 0.0002 0.001 0.0003 0 0
Nuclear Periphery 0.0086 0.0161 0.0047 0.0012 0.0021 0.0094 0.0073 0.0032 0.0042 0.0014 0.0252 0.0002 0.0035 0.0105 0.0068 0.0033 0.0002 0.0003
Nucleolus 0.0301 0.0559 0.056 0.0581 0.1129 0.0655 0.0377 0.0328 0.0681 0.0527 0.0354 0.0455 0.0225 0.0445 0.0483 0.0468 0.0318 0.0381
Nucleus 0.9264 0.9236 0.9216 0.9353 0.882 0.915 0.887 0.949 0.8828 0.8784 0.7347 0.914 0.829 0.9417 0.8649 0.8926 0.9673 0.9598
Peroxisomes 0.0026 0 0.0001 0 0 0 0.0026 0.0009 0.0058 0.0012 0.0135 0.0113 0.0076 0 0.0051 0.0021 0 0
Punctate Nuclear 0.0067 0.0007 0.0013 0.0045 0.0022 0.0037 0.0035 0.0056 0.0014 0.0003 0.038 0.0003 0.0031 0.0008 0.0048 0.0012 0.0003 0.0003
Vacuole 0.0005 0.0017 0.0008 0 0.0001 0.0003 0.0012 0.0007 0.0017 0.0005 0.0016 0.0011 0.0109 0.0004 0.0023 0.0005 0 0.0002
Vacuole Periphery 0.0004 0.0005 0.0002 0.0001 0.0001 0.0004 0.0011 0.0006 0.0008 0.0008 0.0016 0.0002 0.0068 0.0003 0.0013 0.0003 0 0

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 22.2809 13.0803 21.6183 15.5359 18.5402 15.2889 14.4278 15.6211 13.7666 16.301
Translational Efficiency 0.5014 0.8449 0.4882 0.67 0.4805 0.6344 0.7993 0.4596 0.5158 0.5416

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
1060 243 135 573 1598 1373 159 201 2658 1616 294 774

Protein Abundance

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
Mean 587.46 956.18 1004.52 921.16 827.09 839.01 1102.35 1003.12 731.53 856.63 1057.43 942.44
Standard Deviation 111.97 152.44 177.95 130.57 115.19 122.79 130.45 112.94 163.54 134.38 161.61 131.25
Intensity Change Log 2 — 0.702792 0.773944 0.648961 — 0.020644 0.414466 0.278378 — 0.343793 0.574758 0.443976

Localization Score (DeepLoc)

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
Actin 0.000137 0.000605 0.001376 0.000974 0.000207 0.000361 0.001228 0.001127 0.000179 0.000398 0.001296 0.001013
Bud Neck 0.002024 0.008808 0.013115 0.017162 0.005141 0.007417 0.008963 0.016337 0.003898 0.007626 0.010870 0.016948
Bud Site 0.001279 0.002193 0.002008 0.003864 0.000381 0.001993 0.001095 0.003651 0.000739 0.002023 0.001514 0.003809
Cell Periphery 0.000308 0.000085 0.000056 0.000117 0.000100 0.000180 0.000066 0.000168 0.000183 0.000166 0.000061 0.000130
Cytoplasm 0.036741 0.012793 0.000836 0.014464 0.007482 0.038040 0.001231 0.018851 0.019150 0.034243 0.001050 0.015603
Cytoplasmic Foci 0.005053 0.003413 0.000041 0.005486 0.000394 0.004398 0.000040 0.003986 0.002252 0.004250 0.000040 0.005097
Eisosomes 0.000019 0.000023 0.000056 0.000027 0.000018 0.000022 0.000047 0.000041 0.000019 0.000022 0.000051 0.000031
Endoplasmic Reticulum 0.002104 0.007375 0.007370 0.009963 0.005390 0.007095 0.008716 0.008904 0.004079 0.007137 0.008098 0.009688
Endosome 0.000584 0.002257 0.000183 0.005411 0.000332 0.002342 0.000252 0.011212 0.000432 0.002329 0.000220 0.006918
Golgi 0.000361 0.001325 0.000068 0.004062 0.000098 0.001036 0.000083 0.003925 0.000203 0.001079 0.000076 0.004026
Lipid Particles 0.000969 0.002670 0.000134 0.000812 0.000442 0.001770 0.000154 0.000408 0.000652 0.001905 0.000145 0.000707
Mitochondria 0.001167 0.002095 0.001662 0.003112 0.001008 0.004513 0.001144 0.009402 0.001071 0.004149 0.001382 0.004745
Mitotic Spindle 0.002487 0.000936 0.000108 0.016761 0.000912 0.005887 0.001528 0.023204 0.001540 0.005142 0.000876 0.018434
None 0.027673 0.001164 0.001116 0.009405 0.003007 0.003609 0.001608 0.007135 0.012844 0.003241 0.001382 0.008816
Nuclear Periphery 0.001421 0.000572 0.000247 0.002056 0.000729 0.001704 0.000482 0.001089 0.001005 0.001534 0.000374 0.001805
Nuclear Periphery Foci 0.001038 0.000378 0.000076 0.001137 0.000186 0.000891 0.000192 0.000666 0.000526 0.000814 0.000138 0.001014
Nucleolus 0.009934 0.004946 0.008105 0.003544 0.017195 0.008977 0.006538 0.008086 0.014299 0.008371 0.007258 0.004723
Nucleus 0.904879* 0.934878* 0.960117* 0.879190* 0.955540* 0.900055* 0.963111* 0.860874* 0.935337* 0.905292* 0.961736* 0.874434*
Peroxisomes 0.000328 0.002907 0.000605 0.000893 0.000235 0.000824 0.000357 0.000328 0.000272 0.001137 0.000471 0.000746
Vacuole 0.001033 0.010239 0.002432 0.015371 0.000992 0.006804 0.003039 0.017937 0.001008 0.007321 0.002760 0.016037
Vacuole Periphery 0.000462 0.000338 0.000288 0.006190 0.000212 0.002083 0.000127 0.002670 0.000311 0.001821 0.000201 0.005276

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 -3.96 -6.80 -7.59 -3.39 0.74 -2.58 -5.58 -9.01 -7.86 -0.57 -4.11 -8.33 -10.40 -7.95 0.71
Bud Neck -3.22 -4.33 -11.38 -4.32 -2.27 -2.33 -4.87 -6.52 -5.77 -4.23 -4.53 -6.04 -12.33 -9.14 -4.79
Bud Site -1.09 -1.14 -4.41 -2.67 -2.78 -2.91 -4.35 -5.13 -3.71 -3.96 -2.49 -3.08 -7.15 -4.59 -4.83
Cell Periphery 5.00 6.21 5.11 -0.82 -3.61 -2.36 0.89 -1.77 1.14 -2.72 0.63 5.59 3.51 1.87 -3.70
Cytoplasm 4.10 11.88 6.23 -0.02 -7.20 -7.79 4.00 -1.82 5.39 -4.11 -4.31 11.78 2.24 5.64 -8.16
Cytoplasmic Foci 1.15 5.05 2.13 0.40 -2.27 -5.31 2.93 -0.95 2.90 -1.43 -2.08 5.45 0.45 2.02 -2.57
Eisosomes -1.87 -5.35 -7.63 -3.81 1.82 -2.20 -6.33 -8.23 -7.47 -1.09 -2.64 -8.30 -11.06 -8.92 1.52
Endoplasmic Reticulum -6.25 -7.21 -7.76 -1.86 -2.90 -3.23 -5.06 -6.86 -5.18 -2.18 -7.06 -7.70 -8.36 -4.57 -2.68
Endosome -1.52 3.80 -2.76 -0.48 -3.29 -4.81 -0.42 -1.68 -0.72 -1.67 -4.83 2.41 -3.30 -0.87 -3.49
Golgi -0.96 1.61 -1.94 -0.54 -2.44 -2.32 -0.69 -1.56 -0.26 -1.51 -2.28 1.20 -2.57 -0.91 -2.78
Lipid Particles -0.69 6.25 2.16 0.91 -2.91 -1.89 0.78 -0.55 1.80 -4.48 -1.82 2.86 0.46 2.01 -3.39
Mitochondria -0.88 -1.12 -2.68 -0.35 -1.05 -3.44 -0.73 -1.43 0.17 -1.30 -3.67 -1.26 -2.58 1.26 -1.98
Mitotic Spindle 1.21 1.82 -3.58 -4.14 -4.35 -2.93 -1.14 -2.51 -1.64 -1.47 -2.39 -0.64 -4.57 -3.37 -3.59
None 9.11 9.09 6.39 -3.33 -3.31 -0.92 0.87 -1.17 -0.41 -1.64 7.33 8.44 4.08 -2.01 -3.23
Nuclear Periphery 2.76 5.18 -2.71 -4.89 -6.45 -3.46 0.08 -6.15 -1.84 -7.17 -2.34 3.55 -4.99 -2.74 -7.27
Nuclear Periphery Foci 1.14 1.72 0.32 -1.70 -3.62 -1.85 -0.51 -2.43 0.78 -0.88 -0.65 1.24 -0.95 -0.03 -2.84
Nucleolus 4.43 1.49 3.12 -1.39 1.15 5.01 4.63 4.25 0.40 -0.33 4.98 4.93 6.56 1.25 0.70
Nucleus -1.85 -6.61 3.00 3.82 8.18 8.62 1.16 7.52 3.36 6.19 5.09 -3.01 8.69 4.18 9.71
Peroxisomes -1.44 -1.98 -0.70 1.31 0.19 -2.31 -1.95 -1.81 1.51 0.08 -2.54 -2.82 -1.20 1.57 -0.02
Vacuole -2.99 -2.57 -7.23 -1.86 -6.74 -5.99 -3.51 -5.71 -4.79 -4.80 -6.60 -4.05 -9.19 -6.40 -7.65
Vacuole Periphery 0.42 0.59 -1.70 -1.81 -1.85 -3.46 0.78 -1.56 1.56 -1.68 -3.21 0.72 -1.98 -0.43 -2.08
Standard name
Human Ortholog
Description Ribosomal lysine methyltransferase; specific for monomethylation of Rpl42ap and Rpl42bp (lysine 40); nuclear SET domain containing protein; relocalizes to the cytosol in response to hypoxia
Localization
Cell Percentages nucleus (95%)
Cell Cycle Regulation No
Subcompartmental Group nucleus-4

Rkm3

Rkm3


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 (Rkm3-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