Standard name
Human Ortholog
Description AdoMet-dependent tRNA methyltransferase; also involved in methoxycarbonylation; required for the synthesis of wybutosine (yW), a modified guanosine found at the 3'-position adjacent to the anticodon of phe-tRNA; similarity to Ppm1p
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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 0.06 0 0 0 0 – 0 0 0 0 0 0 0 0 0.06 0.05 0 0 0 0 0 0
Cytoplasm 0.96 1.0 0.99 0.98 0.99 0.95 0.92 – 0.8 0.77 0.73 0.78 0.99 1.0 1.0 0.95 0.95 0.93 0.93 0.97 0.96 0.89 0.87 0.87
Endoplasmic Reticulum 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0.05 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 0.06 0.12 – 0.35 0.33 0.4 0.23 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 0.05 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 – 0 0 0 0 0 0 0 0.05 0.05 0 0 0 0 0 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 1 0 1 1 – 2 0 0 2 0 0 0 0 0 0 0 0 0 2 4 3
Bud 0 3 6 0 1 1 7 – 4 10 11 9 1 3 1 0 0 0 0 0 0 1 1 3
Bud Neck 0 0 0 0 0 0 2 – 1 0 0 4 0 0 0 0 0 0 0 0 0 0 3 1
Bud Site 0 0 0 0 0 1 0 – 0 1 1 1 0 0 0 0 0 0 – – – – – –
Cell Periphery 0 2 17 4 7 7 8 – 5 9 3 4 1 4 1 10 14 8 0 0 0 0 0 0
Cytoplasm 171 206 302 292 396 358 587 – 307 314 328 378 365 479 539 397 219 158 161 207 305 227 302 341
Endoplasmic Reticulum 4 1 0 1 0 4 3 – 7 1 0 5 3 1 1 20 5 3 0 0 1 6 10 8
Endosome 0 0 0 0 0 0 0 – 0 0 1 1 0 0 0 0 1 0 4 1 2 0 1 3
Golgi 1 0 0 0 0 0 1 – 0 0 0 0 0 0 0 1 0 0 1 0 0 0 1 2
Mitochondria 3 1 0 1 5 24 80 – 134 137 177 109 3 1 1 5 2 2 1 0 3 2 7 7
Nucleus 0 0 1 0 3 4 4 – 2 4 4 4 2 2 0 12 1 8 0 0 0 1 0 0
Nuclear Periphery 2 0 0 0 0 0 1 – 1 0 1 2 0 0 0 0 0 0 0 0 0 0 0 0
Nucleolus 0 0 0 0 0 0 0 – 0 1 1 2 0 0 1 0 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 0 0
SpindlePole 0 0 0 0 0 1 0 – 0 2 1 2 0 0 0 0 0 0 0 0 0 0 0 1
Vac/Vac Membrane 0 0 0 3 0 2 2 – 7 8 10 10 0 1 0 23 11 6 0 2 3 11 9 11
Unique Cell Count 178 207 304 297 399 378 641 386 409 447 482 370 480 541 419 231 169 174 214 319 256 349 392
Labelled Cell Count 181 213 326 302 412 403 696 470 487 538 533 375 491 544 468 254 185 174 214 319 256 349 392


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) 6.1 5.6 6.3 5.9 6.0 4.7 4.6 – 4.0 4.0 3.9 4.5 5.9 6.0 6.0 10.7 11.2 10.7 5.8 6.1 6.4
Std Deviation (1e-4) 0.7 0.9 0.8 1.1 1.1 0.7 0.9 – 0.7 0.7 0.8 0.8 0.8 0.9 0.9 2.3 2.7 2.0 0.8 1.1 1.3
Intensity Change (Log2) – – – -0.09 -0.07 -0.44 -0.46 – -0.65 -0.68 -0.71 -0.5 -0.1 -0.06 -0.08 0.76 0.83 0.76 -0.11 -0.06 0.02


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 -2.8 -2.8 0 0 – 0 0 0 0 -4.3 -4.0 -5.2 -2.2 0.2 -0.4
Cytoplasm -1.2 -0.1 -3.4 -4.7 – -8.0 -8.7 -9.5 -8.4 -0.9 1.0 0.6 -3.4 -3.3 -3.7
Endoplasmic Reticulum 0 0 0 0 – 0 0 0 0 0 0 0 3.9 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 – 0 0 0 0 0 0 0 0 0 0
Nucleus 0 0 0 0 – 0 0 0 0 0 0 0 2.5 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 0 – 0 0 0 0 0 0 0 4.2 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 0.7757 1.5456 1.3854 0.8114 1.0454 1.2008 1.0416 2.0317 1.7021 1.7 1.0476 1.7702 1.2423 2.3479 1.8728 2.0984 1.7082 2.0849
Actin 0.045 0.001 0.0228 0.0115 0.0002 0.01 0.0047 0.0005 0.002 0.0315 0.0009 0.0075 0.0218 0.0027 0.0172 0.0029 0 0.0152
Bud 0.001 0.0005 0.0011 0.0015 0.0002 0.0008 0.0005 0.0004 0.0035 0.0067 0.0003 0.0007 0.0004 0.0002 0.0009 0.0003 0.0001 0.0002
Bud Neck 0.0158 0.0002 0.0021 0.0009 0.0004 0.0024 0.0016 0.0002 0.0012 0.0006 0.0004 0.0006 0.0002 0.0001 0.001 0.0002 0.0001 0.0006
Bud Periphery 0.0023 0.0004 0.0008 0.002 0.0002 0.0009 0.0005 0.0001 0.0021 0.0067 0.0003 0.0005 0.0003 0.0002 0.0007 0.0002 0 0.0002
Bud Site 0.0032 0.0023 0.0092 0.001 0.0002 0.0005 0.0022 0.0036 0.0027 0.0076 0.0003 0.0002 0.0007 0.0009 0.0033 0.0007 0 0.0001
Cell Periphery 0.0005 0.0002 0.0002 0.0001 0.0001 0.0001 0.0002 0.0001 0.0002 0.0002 0.0001 0 0.0001 0.0001 0.0002 0.0001 0 0
Cytoplasm 0.5839 0.743 0.73 0.8507 0.7738 0.7662 0.7331 0.8885 0.8121 0.7804 0.8423 0.9006 0.7075 0.9052 0.8529 0.8706 0.8927 0.8901
Cytoplasmic Foci 0.0281 0.0214 0.0306 0.0181 0.0225 0.0172 0.0499 0.0253 0.0319 0.0408 0.0105 0.0174 0.015 0.0057 0.0191 0.0081 0.0072 0.0126
Eisosomes 0.0004 0.0001 0.0002 0 0 0.0001 0 0 0.0001 0.0001 0 0 0.0004 0.0002 0.0001 0 0 0
Endoplasmic Reticulum 0.0077 0.0042 0.0037 0.0024 0.0031 0.0027 0.0064 0.0011 0.0021 0.0036 0.0011 0.0021 0.0074 0.0025 0.0037 0.0086 0.0025 0.0029
Endosome 0.0208 0.0067 0.0107 0.013 0.0199 0.0102 0.0526 0.0133 0.0314 0.0301 0.0498 0.0134 0.0264 0.0033 0.0155 0.02 0.0068 0.0101
Golgi 0.0092 0.0021 0.0026 0.0031 0.0006 0.0016 0.0121 0.0015 0.0115 0.0031 0.0253 0.0045 0.0056 0.0005 0.0069 0.0046 0.0001 0.0046
Lipid Particles 0.0056 0.0013 0.0021 0.0006 0.0006 0.0007 0.0114 0.0015 0.0068 0.0056 0.0022 0.0036 0.0069 0.0002 0.0027 0.0005 0.0001 0.0062
Mitochondria 0.0068 0.0006 0.0015 0.0024 0.0005 0.0013 0.0114 0.0004 0.0163 0.0011 0.0502 0.0022 0.0021 0.0041 0.0113 0.0019 0.0001 0.0036
None 0.2435 0.2027 0.1596 0.0577 0.146 0.1749 0.0658 0.0581 0.0656 0.0478 0.0084 0.0402 0.1821 0.0707 0.0538 0.0747 0.0864 0.0491
Nuclear Periphery 0.0028 0.0009 0.0023 0.0008 0.0015 0.0025 0.0116 0.0002 0.0009 0.001 0.0002 0.0005 0.0058 0.0009 0.0019 0.0021 0.0005 0.0004
Nucleolus 0.0004 0.0001 0.0003 0.0001 0.0003 0.0002 0.0007 0.0001 0.0002 0.0001 0 0 0.0003 0.0001 0.0002 0 0 0
Nucleus 0.002 0.0014 0.0056 0.0016 0.0022 0.0026 0.0108 0.0009 0.0011 0.0016 0.0006 0.0009 0.0038 0.0008 0.0011 0.0011 0.0005 0.0008
Peroxisomes 0.0151 0.007 0.0086 0.0276 0.0003 0.0007 0.0081 0.0023 0.0034 0.023 0.0026 0.0023 0.0025 0.0001 0.0033 0.0001 0 0.0017
Punctate Nuclear 0.0019 0.0011 0.0027 0.0005 0.024 0.002 0.0081 0.0004 0.001 0.0013 0.0001 0.0006 0.0064 0.0002 0.0017 0.0005 0.0002 0.0004
Vacuole 0.0033 0.0024 0.0028 0.0039 0.0028 0.0021 0.0061 0.0013 0.0033 0.0059 0.0029 0.0015 0.0034 0.0012 0.0019 0.0021 0.0024 0.0009
Vacuole Periphery 0.0008 0.0003 0.0006 0.0006 0.0006 0.0005 0.0019 0.0002 0.0009 0.0012 0.0015 0.0004 0.0009 0.0003 0.0008 0.0006 0.0004 0.0003

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 16.1177 8.5032 8.7636 8.4983 7.8793 11.0913 8.2394 6.2864 6.1422 10.7323
Translational Efficiency 0.8467 0.95 1.0974 0.8213 1.2575 0.82 0.8154 0.8219 0.7553 0.9845

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
1800 1215 269 1222 1534 1648 281 123 3334 2863 550 1345

Protein Abundance

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
Mean 687.26 860.76 1098.80 1008.72 774.54 853.10 1079.42 1031.42 727.42 856.35 1088.90 1010.80
Standard Deviation 88.08 119.30 122.45 120.54 93.93 115.32 121.47 142.33 100.70 117.09 122.34 122.87
Intensity Change Log 2 — 0.324755 0.677001 0.553598 — 0.139375 0.478845 0.413220 — 0.229503 0.575404 0.480922

Localization Score (DeepLoc)

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
Actin 0.000126 0.000295 0.000812 0.002541 0.000126 0.000345 0.000448 0.000498 0.000126 0.000324 0.000626 0.002354
Bud Neck 0.010835 0.004700 0.003687 0.003989 0.005037 0.012089 0.002706 0.003170 0.008167 0.008953 0.003186 0.003914
Bud Site 0.009911 0.010944 0.014500 0.041082 0.006317 0.020290 0.019001 0.032021 0.008257 0.016324 0.016799 0.040253
Cell Periphery 0.000125 0.000073 0.000284 0.000092 0.000087 0.000091 0.000104 0.000217 0.000107 0.000083 0.000192 0.000104
Cytoplasm 0.594115* 0.689268* 0.401445* 0.628747* 0.636132* 0.601083* 0.568869* 0.507413* 0.613448* 0.638507* 0.486983* 0.617651*
Cytoplasmic Foci 0.183767* 0.139914 0.024213 0.032284 0.177156 0.185092* 0.014703 0.029998 0.180725* 0.165919 0.019354 0.032075
Eisosomes 0.000099 0.000037 0.000102 0.000022 0.000067 0.000068 0.000034 0.000040 0.000084 0.000055 0.000067 0.000024
Endoplasmic Reticulum 0.001360 0.000564 0.006843 0.000741 0.000679 0.000338 0.002035 0.000942 0.001047 0.000434 0.004387 0.000759
Endosome 0.016146 0.014988 0.012072 0.004821 0.014514 0.023661 0.003135 0.006845 0.015395 0.019980 0.007506 0.005006
Golgi 0.003530 0.001256 0.000227 0.001180 0.002366 0.004634 0.000182 0.000394 0.002994 0.003200 0.000204 0.001108
Lipid Particles 0.004873 0.001831 0.004903 0.000767 0.002256 0.001926 0.001282 0.001302 0.003669 0.001886 0.003053 0.000816
Mitochondria 0.002839 0.000403 0.000359 0.000407 0.000692 0.002589 0.001074 0.010157 0.001851 0.001661 0.000724 0.001298
Mitotic Spindle 0.000257 0.003982 0.004979 0.065764 0.002544 0.009086 0.010189 0.047359 0.001309 0.006920 0.007641 0.064081
None 0.004209 0.001663 0.007502 0.003852 0.001420 0.001476 0.011033 0.010747 0.002926 0.001555 0.009306 0.004483
Nuclear Periphery 0.000238 0.000153 0.002431 0.000660 0.000112 0.000115 0.001436 0.000598 0.000180 0.000131 0.001923 0.000655
Nuclear Periphery Foci 0.000659 0.001101 0.008254 0.003530 0.000880 0.000424 0.004240 0.009715 0.000761 0.000712 0.006203 0.004096
Nucleolus 0.000889 0.000298 0.000461 0.000249 0.000333 0.000619 0.000119 0.000352 0.000633 0.000483 0.000287 0.000258
Nucleus 0.055950 0.034993 0.191044* 0.061974 0.040642 0.023439 0.140110* 0.047319 0.048907 0.028342 0.165021* 0.060634
Peroxisomes 0.002048 0.001932 0.000625 0.001883 0.001523 0.004978 0.001050 0.000758 0.001807 0.003685 0.000842 0.001780
Vacuole 0.105869 0.090878 0.314871* 0.144328 0.106151 0.105851 0.218101* 0.280797* 0.105999 0.099497 0.265430* 0.156808
Vacuole Periphery 0.002154 0.000727 0.000386 0.001087 0.000966 0.001808 0.000149 0.009359 0.001607 0.001349 0.000264 0.001843

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 -1.40 -10.77 -1.75 -1.05 0.62 -2.87 -4.70 -3.26 0.14 0.90 -2.76 -11.02 -1.81 -1.10 -0.07
Bud Neck 6.54 6.81 10.84 3.37 5.17 -7.39 4.59 3.83 9.87 0.00 -0.98 8.40 11.65 11.06 3.91
Bud Site -0.59 -0.40 -1.91 -1.36 -0.99 -9.18 -1.06 -1.47 3.49 -0.34 -6.97 -0.92 -2.95 1.34 -1.54
Cell Periphery 9.32 -8.04 8.50 -0.62 10.90 -0.66 -2.46 -0.28 -0.10 0.64 6.40 -7.63 6.20 1.08 10.24
Cytoplasm -9.61 19.30 9.03 16.34 -12.70 3.76 13.40 11.52 10.11 2.32 -3.42 22.16 13.88 15.65 -10.20
Cytoplasmic Foci 7.48 39.57 38.63 24.92 -3.69 -1.27 37.31 31.09 31.13 -2.04 3.53 54.53 50.63 41.37 -5.12
Eisosomes 12.02 -0.14 14.93 3.89 11.31 -0.14 5.20 4.10 4.71 -0.37 8.23 2.78 17.14 11.80 11.33
Endoplasmic Reticulum 4.08 -10.04 2.43 -3.84 11.08 3.92 -8.38 -3.51 -5.85 5.09 5.47 -11.35 1.03 -7.32 12.02
Endosome 0.81 5.76 15.64 9.55 10.50 -5.70 11.05 10.23 14.82 -0.17 -3.96 11.80 19.51 18.80 8.74
Golgi 5.74 8.92 8.60 5.23 -0.78 -3.07 4.89 4.75 7.73 -1.31 -0.36 9.72 9.14 8.41 -1.51
Lipid Particles 4.56 0.96 7.22 1.39 8.76 0.90 2.57 3.02 1.01 1.14 4.56 2.00 8.39 2.16 8.80
Mitochondria 3.75 3.65 4.01 1.37 4.78 -2.43 1.50 -0.48 1.02 -0.72 0.38 3.89 4.12 2.87 0.85
Mitotic Spindle -2.84 -4.30 -8.17 -6.73 -5.68 -3.22 -2.80 -2.47 -1.69 -1.33 -4.50 -4.48 -8.20 -6.28 -5.19
None 3.65 0.54 0.47 -4.99 -0.31 -0.12 -3.97 -2.74 -2.53 1.10 3.15 -2.16 -2.21 -5.90 1.05
Nuclear Periphery 1.04 -16.78 -10.46 -14.85 10.77 -0.12 -11.55 -8.77 -8.60 3.48 1.07 -19.44 -14.57 -16.87 9.73
Nuclear Periphery Foci -3.91 -11.93 -10.50 -7.30 7.79 5.84 -8.31 -2.25 -2.61 0.34 0.26 -14.24 -9.88 -9.83 7.03
Nucleolus 6.13 4.52 7.09 2.41 5.50 -1.77 6.99 1.15 2.08 -1.47 1.37 6.03 7.59 2.71 3.00
Nucleus 8.42 -13.41 -11.21 -16.85 10.25 9.97 -11.87 -4.38 -6.24 5.72 13.76 -17.35 -14.30 -20.82 11.35
Peroxisomes 0.34 8.66 6.55 4.28 -0.60 -5.66 4.73 4.30 7.30 -0.16 -4.92 9.08 7.09 8.18 -0.60
Vacuole 2.00 -15.93 -24.19 -24.51 3.81 -0.11 -15.31 -14.43 -14.42 -3.97 1.13 -22.10 -27.57 -27.82 3.45
Vacuole Periphery 4.55 5.69 5.85 4.45 1.23 -3.63 7.86 -0.16 0.66 -1.01 1.30 7.71 5.97 5.91 -0.87
Standard name
Human Ortholog
Description AdoMet-dependent tRNA methyltransferase; also involved in methoxycarbonylation; required for the synthesis of wybutosine (yW), a modified guanosine found at the 3'-position adjacent to the anticodon of phe-tRNA; similarity to Ppm1p
Localization
Cell Percentages cytoplasm (96%)
Cell Cycle Regulation No
Subcompartmental Group cytoplasm-9

Ppm2

Ppm2


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 (Ppm2-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