Standard name
Human Ortholog
Description (SGD) Protoporphyrinogen oxidase; a mitochondrial enzyme that catalyzes the seventh step in the heme biosynthetic pathway, converting protoporphyrinogen IX to protoporphyrin IX; inhibited by diphenyl ether-type herbicides
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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 0.07 0 0 0 0 – 0 0 0 0 0 0.13 0.12 0.09 – 0 0 0 0 0 0 0 0
Bud 0 0.05 0 0 0 0 – 0 0 0 0 0 0 0 0 – 0.06 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
Bud Site 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 0.06 0 – 0.17 0.2 0 0 0 0 0 0
Cytoplasm 0 0.11 0 0.05 0 0 – 0 0 0 0.05 0.05 0 0.16 0.26 – 0.11 0.1 0 0 0 0 0 0
Endoplasmic Reticulum 0.05 0.05 0 0 0 0 – 0 0 0 0 0 0.09 0.16 0.06 – 0 0.05 0 0 0 0 0 0
Endosome 0 0 0.09 0 0.14 0 – 0 0 0 0 0 0.05 0.05 0.13 – 0.14 0.05 0.09 0.07 0.07 0.07 0.08 0.08
Golgi 0 0 0 0 0 0 – 0 0 0 0 0 0.11 0.06 0 – 0.06 0.35 0 0 0 0 0 0
Mitochondria 0.9 0.93 0.83 0.91 0.81 0.86 – 0.87 0.91 0.94 0.92 0.92 0.59 0.27 0.26 – 0.08 0.05 0.79 0.78 0.67 0.76 0.68 0.69
Nucleus 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 – 0.06 0 0 0 0 0 0 0
Nuclear Periphery 0 0 0 0 0 0.05 – 0.08 0.09 0.09 0.08 0.07 0 0 0 – 0 0 0 0 0 0 0 0
Nucleolus 0 0 0 0 0 0 – 0.09 0.08 0.06 0 0 0 0 0 – 0 0 0 0 0 0 0 0
Peroxisomes 0 0 0.19 0.09 0.08 0 – 0 0 0 0 0 0 0 0 – 0.28 0.2 0 0 0.16 0.06 0.09 0.07
SpindlePole 0 0 0.05 0 0 0 – 0 0 0 0 0 0.07 0.06 0.08 – 0.14 0.05 0 0 0 0 0 0
Vac/Vac Membrane 0.07 0 0 0 0.12 0.11 – 0.05 0.05 0 0 0 0.11 0.19 0.14 – 0.11 0.05 0 0.05 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 1 9 0 0 1 0 – 0 0 1 0 1 32 29 22 – 0 0 0 2 7 6 19 25
Bud 1 6 11 7 8 4 – 7 12 15 13 13 10 8 7 – 2 0 0 0 1 0 2 4
Bud Neck 1 0 0 0 0 0 – 0 0 0 1 1 3 5 6 – 0 0 0 0 0 1 7 10
Bud Site 0 0 0 1 1 0 – 5 6 6 5 5 0 1 1 – 0 0 – – – – – –
Cell Periphery 2 2 13 11 5 10 – 8 3 3 2 2 9 15 6 – 6 4 0 0 0 1 2 2
Cytoplasm 5 14 10 13 11 14 – 9 9 6 18 18 10 39 60 – 4 2 0 0 0 0 1 1
Endoplasmic Reticulum 7 7 2 0 5 1 – 6 2 2 3 4 21 39 14 – 1 1 0 0 1 1 4 6
Endosome 5 0 30 4 48 19 – 30 3 2 0 1 12 12 31 – 5 1 13 9 22 31 65 69
Golgi 4 1 3 2 4 1 – 2 1 0 0 0 27 15 3 – 2 7 1 2 13 13 29 36
Mitochondria 123 124 271 230 273 389 – 726 421 550 357 357 140 68 60 – 3 1 125 103 231 351 544 611
Nucleus 0 2 2 1 0 4 – 9 3 2 4 4 3 2 1 – 2 0 0 0 0 0 2 5
Nuclear Periphery 3 2 5 0 6 21 – 65 42 50 30 28 1 0 0 – 0 0 2 1 2 4 7 5
Nucleolus 1 0 2 2 2 19 – 76 39 36 17 17 0 0 0 – 0 0 0 0 0 1 2 2
Peroxisomes 2 0 63 23 28 19 – 35 8 11 5 4 4 1 6 – 10 4 7 4 55 29 72 64
SpindlePole 6 2 16 9 13 7 – 15 14 9 2 1 16 15 18 – 5 1 1 0 2 2 7 8
Vac/Vac Membrane 9 3 12 8 40 51 – 41 25 23 13 12 27 47 32 – 4 1 2 6 1 14 21 32
Unique Cell Count 136 133 327 253 337 450 835 462 588 387 386 239 250 235 36 20 158 133 346 461 799 891
Labelled Cell Count 170 172 440 311 445 559 1034 588 716 470 468 315 296 267 44 22 158 133 346 461 799 891


Mitochondria

(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) 4.4 3.8 5.1 5.2 5.7 5.8 – 5.6 5.4 5.4 4.9 4.9 5.9 6.1 6.2 – 5.7 7.0 6.4 6.4 6.5
Std Deviation (1e-4) 0.5 0.5 1.4 1.4 1.5 2.7 – 1.5 1.4 1.4 1.6 1.6 0.6 0.7 0.9 – 1.8 1.7 1.4 1.2 1.3
Intensity Change (Log2) – – – 0.04 0.15 0.18 – 0.13 0.09 0.08 -0.07 -0.07 0.21 0.25 0.29 – 0.17 0.47 0.33 0.34 0.36


Localization RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3
Actin – – – – – – – – – – – – – – –
Bud – – – – – – – – – – – – – – –
Bud Neck – – – – – – – – – – – – – – –
Bud Site – – – – – – – – – – – – – – –
Cell Periphery – – – – – – – – – – – – – – –
Cyto – – – – – – – – – – – – – – –
Endoplasmic Reticulum – – – – – – – – – – – – – – –
Endosome – – – – – – – – – – – – – – –
Golgi – – – – – – – – – – – – – – –
Mitochondria – – – – – – – – – – – – – – –
Nuclear Periphery – – – – – – – – – – – – – – –
Nuc – – – – – – – – – – – – – – –
Nucleolus – – – – – – – – – – – – – – –
Peroxisomes – – – – – – – – – – – – – – –
SpindlePole – – – – – – – – – – – – – – –
Vac – – – – – – – – – – – – – – –
Cortical Patches – – – – – – – – – – – – – – –
Cytoplasm – – – – – – – – – – – – – – –
Nucleus – – – – – – – – – – – – – – –
Vacuole – – – – – – – – – – – – – – –

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 1.782 1.9721 2.1293 2.0476 2.1296 1.9554 1.5737 1.8824 1.6362 1.5704 1.1187 1.6545 0.8445 1.4964 1.3809 1.0537 0.8084 1.0036
Actin 0.0306 0.0022 0.0147 0.0501 0.0432 0.0034 0.0501 0.0206 0.0303 0.004 0.0673 0.0302 0.0459 0.0481 0.0187 0.0009 0.005 0.0049
Bud 0.0007 0.0005 0.001 0.0019 0.0008 0.0017 0.0006 0.0011 0.0007 0.0002 0.0019 0.0002 0.0009 0.0016 0.0002 0.001 0.0004 0.0002
Bud Neck 0.0047 0.0029 0.0022 0.0041 0.0007 0.0007 0.0007 0.0009 0.0016 0.0077 0.0009 0.0014 0.0013 0.001 0.0002 0.0001 0.0005 0.006
Bud Periphery 0.0025 0.0011 0.0019 0.0037 0.0013 0.0029 0.0009 0.002 0.002 0.0003 0.0057 0.0005 0.0017 0.002 0.0005 0.0221 0.001 0.0004
Bud Site 0.004 0.0097 0.0083 0.0027 0.0031 0.002 0.003 0.0245 0.0022 0.0006 0.0028 0.0006 0.0069 0.0189 0.0005 0.0003 0.0017 0.0003
Cell Periphery 0.0012 0.0004 0.0007 0.001 0.0002 0.0008 0.0004 0.0047 0.0025 0.0002 0.0003 0.0002 0.0014 0.0009 0.0002 0.013 0.0003 0.0002
Cytoplasm 0.0023 0.0016 0.0029 0.0004 0.0025 0.0007 0.0029 0.0018 0.0016 0.0004 0.0018 0.0004 0.0074 0.008 0.0003 0.0007 0.0003 0.0006
Cytoplasmic Foci 0.0328 0.0271 0.0128 0.0311 0.0237 0.0117 0.0334 0.0216 0.0133 0.0163 0.0571 0.012 0.0181 0.0237 0.01 0.0045 0.0238 0.0174
Eisosomes 0.0046 0.0003 0.0008 0.0005 0.0005 0.0002 0.0016 0.0024 0.0006 0.0001 0.0003 0.0004 0.0013 0.0007 0.0003 0.0004 0.0002 0.0001
Endoplasmic Reticulum 0.0031 0.0004 0.0015 0.0006 0.0042 0.0003 0.0041 0.0003 0.0027 0.0004 0.0005 0.0006 0.0013 0.0007 0.0019 0.0001 0.0001 0.0002
Endosome 0.0464 0.0605 0.0273 0.0102 0.1101 0.0213 0.0623 0.0541 0.0374 0.0467 0.0446 0.0211 0.0466 0.0257 0.0198 0.0119 0.0256 0.0214
Golgi 0.0402 0.0721 0.0281 0.0209 0.06 0.0277 0.0843 0.0747 0.0425 0.0671 0.0599 0.0406 0.039 0.0575 0.0337 0.0174 0.0685 0.0391
Lipid Particles 0.0353 0.007 0.0069 0.0022 0.0314 0.0195 0.0316 0.0024 0.0126 0.03 0.0534 0.0403 0.0479 0.0086 0.0116 0.0116 0.0043 0.0163
Mitochondria 0.7125 0.7708 0.8232 0.8425 0.6197 0.8681 0.6211 0.7421 0.8119 0.7675 0.6368 0.7901 0.7102 0.7515 0.8667 0.8912 0.827 0.8538
None 0.0049 0.0004 0.0261 0.0012 0.0034 0.0006 0.0278 0.0004 0.0003 0.0001 0.0006 0.0003 0.0208 0.001 0.0001 0.0005 0.0001 0.0001
Nuclear Periphery 0.0025 0.0002 0.0009 0.001 0.0279 0.0004 0.0052 0.0001 0.0006 0.0001 0.0002 0.0004 0.0018 0.0001 0.0001 0 0 0.0008
Nucleolus 0.0006 0.0002 0.0013 0.0003 0.0016 0.0002 0.0009 0.0002 0.0001 0.0002 0.0003 0.0001 0.001 0.0001 0.0001 0.0001 0.0002 0.0003
Nucleus 0.0007 0.0002 0.0016 0.0003 0.0062 0.0002 0.0012 0.0001 0.0002 0.0001 0.0002 0.0001 0.002 0.0002 0.0001 0.0001 0.0001 0.0002
Peroxisomes 0.0626 0.0356 0.0309 0.0207 0.0423 0.0326 0.0506 0.0432 0.0297 0.054 0.06 0.0575 0.0341 0.0474 0.0324 0.0224 0.0393 0.0332
Punctate Nuclear 0.0012 0.0001 0.0018 0.0012 0.0098 0.0005 0.0023 0.0001 0.0001 0.0001 0.0009 0.0001 0.0016 0.0001 0 0 0.0001 0.0005
Vacuole 0.0033 0.0036 0.0031 0.0016 0.0033 0.0022 0.0081 0.0013 0.0041 0.0017 0.002 0.0008 0.0056 0.0011 0.0011 0.0008 0.0007 0.0019
Vacuole Periphery 0.0031 0.0032 0.002 0.0019 0.0039 0.0025 0.0067 0.0013 0.0028 0.0022 0.0026 0.002 0.0033 0.001 0.0015 0.0008 0.0006 0.0021

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 27.9257 24.355 12.1989 18.8166 20.3112 25.868 20.1619 17.2437 21.6893 25.1307
Translational Efficiency 0.8248 0.7229 0.9981 0.8792 0.9935 0.6654 0.7125 0.7417 0.7241 0.789

Hit Data

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


Micrographs

Cell Count

Number of cells analysed for each strain. R1, R2: biological replicates; R1 & R2: both replicates combined.

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
90 405 1700 985 1551 1756 2775 203 1641 2161 4475 1188

Protein Abundance

Mean and standard deviation of cell GFP intensity, and intensity change (log2) of each mutant relative to wild type.

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
Mean 1059.99 820.19 807.40 953.01 730.86 761.36 924.14 1003.56 748.91 772.39 879.79 961.65
Standard Deviation 163.87 120.42 128.90 141.74 98.94 106.02 117.01 162.23 127.83 111.26 134.21 146.69
Intensity Change Log 2 — -0.370021 -0.392695 -0.153487 — 0.058984 0.338516 0.457460 — -0.179305 -0.048589 0.127682

Localization Score (DeepLoc)

Localization score for each compartment. Values highlighted in green denote significant localization scores (marked * in the plot).

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
Actin 0.017722 0.001919 0.003325 0.062444 0.000568 0.000657 0.006196 0.009113 0.001508 0.000894 0.005106 0.053331
Bud Neck 0.017068 0.004495 0.002365 0.005176 0.004701 0.004535 0.001438 0.007012 0.005379 0.004527 0.001790 0.005490
Bud Site 0.079874 0.015749 0.017441 0.109731* 0.008365 0.006769 0.017314 0.062916 0.012287 0.008452 0.017362 0.101731*
Cell Periphery 0.001608 0.000568 0.000406 0.002317 0.000720 0.000441 0.000448 0.000902 0.000768 0.000465 0.000432 0.002075
Cytoplasm 0.014796 0.004745 0.003710 0.016552 0.001963 0.003651 0.003773 0.012400 0.002667 0.003856 0.003749 0.015843
Cytoplasmic Foci 0.134450 0.068431 0.041234 0.046706 0.026436 0.048972 0.018374 0.057825 0.032360 0.052619 0.027059 0.048606
Eisosomes 0.000210 0.000111 0.000069 0.000277 0.000061 0.000078 0.000072 0.000124 0.000070 0.000084 0.000071 0.000251
Endoplasmic Reticulum 0.013059 0.000398 0.000814 0.002146 0.000415 0.000273 0.000272 0.001512 0.001109 0.000297 0.000478 0.002038
Endosome 0.140714 0.091184 0.075187 0.048598 0.061065 0.084426 0.035665 0.120113 0.065433 0.085692 0.050679 0.060819
Golgi 0.189798* 0.157905* 0.076005 0.119368* 0.075066 0.126540* 0.049773 0.144712* 0.081358 0.132419* 0.059738 0.123698*
Lipid Particles 0.001806 0.006292 0.003511 0.000277 0.003016 0.003245 0.000189 0.000996 0.002949 0.003816 0.001451 0.000400
Mitochondria 0.142221* 0.533008* 0.678372* 0.436919* 0.757956* 0.640397* 0.802810* 0.366465* 0.724187* 0.620271* 0.755538* 0.424880*
Mitotic Spindle 0.018384 0.023271 0.023384 0.039837 0.006838 0.011219 0.023699 0.068416 0.007471 0.013477 0.023579 0.044720
None 0.000072 0.000216 0.000471 0.000244 0.000464 0.000702 0.000194 0.000284 0.000443 0.000611 0.000299 0.000251
Nuclear Periphery 0.002612 0.000105 0.000370 0.000057 0.000062 0.000090 0.000047 0.000201 0.000201 0.000093 0.000170 0.000082
Nuclear Periphery Foci 0.002278 0.000398 0.001195 0.000137 0.000152 0.000123 0.000059 0.000805 0.000269 0.000175 0.000491 0.000251
Nucleolus 0.000805 0.000510 0.000440 0.000493 0.000508 0.000742 0.000033 0.000131 0.000525 0.000698 0.000188 0.000431
Nucleus 0.004049 0.001316 0.000482 0.000377 0.000451 0.000836 0.000061 0.000382 0.000649 0.000926 0.000221 0.000378
Peroxisomes 0.046416 0.063870 0.026955 0.074163 0.035364 0.039563 0.022113 0.027567 0.035970 0.044119 0.023953 0.066201
Vacuole 0.132145 0.012045 0.020820 0.021474 0.005168 0.012921 0.008649 0.075861 0.012132 0.012757 0.013273 0.030767
Vacuole Periphery 0.039912 0.013465 0.023443 0.012706 0.010661 0.013819 0.008819 0.042262 0.012265 0.013753 0.014375 0.017756

Localization Changes (T-score)

Change in localization of each mutant relative to its control (e.g. UBP2_WT: ubp2Δ vs wild type). Values highlighted in yellow (increase) or blue (decrease) denote significant changes (marked * in the plot).

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 1.71 1.56 -4.24 -11.80 -11.48 -0.77 -7.47 -2.46 -2.44 -0.82 1.17 -4.96 -11.91 -12.13 -11.08
Bud Neck 2.03 2.39 1.88 -0.78 -3.38 0.15 3.68 -1.46 -1.66 -3.87 0.81 3.93 -0.32 -1.37 -5.44
Bud Site 4.57 4.52 -2.06 -14.46 -15.45 1.12 -5.26 -5.96 -6.17 -4.99 2.32 -2.97 -17.05 -18.25 -16.43
Cell Periphery 1.75 2.08 -0.94 -3.50 -3.98 1.74 1.76 -0.78 -2.09 -2.10 2.04 2.51 -3.13 -3.94 -4.08
Cytoplasm 3.64 4.21 -0.67 -7.12 -8.77 -3.13 -4.11 -3.40 -2.82 -2.83 -2.34 -2.45 -10.16 -9.12 -9.51
Cytoplasmic Foci 4.41 6.50 6.11 4.30 -1.66 -9.70 4.84 -4.37 -1.17 -5.57 -8.48 2.78 -5.62 1.50 -8.46
Eisosomes 3.00 4.55 -2.00 -9.36 -14.81 -3.71 -2.37 -2.31 -1.71 -1.93 -3.03 -0.28 -14.15 -13.03 -14.33
Endoplasmic Reticulum 1.84 1.78 1.58 -4.42 -3.29 1.29 1.29 -2.92 -3.39 -3.39 2.05 1.58 -1.82 -5.29 -4.71
Endosome 3.31 4.73 6.72 6.11 6.75 -5.14 7.28 -5.15 -3.08 -7.60 -4.75 4.27 1.12 6.06 -3.05
Golgi 1.28 4.93 3.01 3.42 -6.63 -9.51 6.26 -4.73 -1.18 -6.59 -9.71 5.39 -6.64 1.40 -11.54
Lipid Particles -1.66 -1.73 2.24 2.29 4.31 -0.29 4.97 2.44 2.72 -1.79 -1.00 2.42 4.62 4.95 3.42
Mitochondria -11.99 -19.16 -10.08 4.41 16.85* 10.53 -4.69 14.92 10.45 17.04* 9.35 -3.24 22.27 15.21 28.62*
Mitotic Spindle -0.55 -0.63 -2.58 -3.02 -4.34 -2.66 -9.26 -4.89 -4.53 -3.54 -3.51 -10.12 -10.21 -8.38 -5.77
None -5.22 -5.73 -12.90 -0.73 3.32 -0.76 1.38 0.97 1.98 -2.90 -0.60 0.82 1.08 2.10 1.82
Nuclear Periphery 1.03 0.92 1.05 1.45 3.61 -1.18 1.28 -2.70 -2.09 -2.97 0.80 0.23 0.86 0.32 2.41
Nuclear Periphery Foci 1.11 0.62 1.27 1.85 2.70 0.59 2.05 -1.29 -1.34 -1.44 0.87 -1.24 -0.11 -0.94 1.10
Nucleolus 0.38 0.62 0.33 0.01 -0.20 -0.66 2.80 2.12 1.76 -2.27 -0.61 1.94 0.12 0.52 -0.71
Nucleus 1.26 1.89 1.94 1.53 0.42 -1.39 2.58 0.18 1.45 -1.89 -1.13 2.28 1.13 2.11 -1.40
Peroxisomes -1.32 1.68 -2.21 -1.14 -8.26 -1.10 4.29 1.18 1.82 -0.84 -2.22 4.10 -5.74 -4.23 -9.02
Vacuole 5.65 5.24 5.19 -3.19 -0.27 -7.06 -4.74 -7.25 -6.45 -6.89 -0.38 -0.83 -6.50 -6.75 -6.70
Vacuole Periphery 3.55 2.30 3.79 0.25 5.42 -2.51 1.62 -5.64 -5.09 -6.02 -1.16 -1.78 -3.04 -2.32 -2.04
Standard name
Human Ortholog
Description (SGD) Protoporphyrinogen oxidase; a mitochondrial enzyme that catalyzes the seventh step in the heme biosynthetic pathway, converting protoporphyrinogen IX to protoporphyrin IX; inhibited by diphenyl ether-type herbicides
Localization
Cell Percentages mitochondrion (94%)
Cell Cycle Regulation No
Subcompartmental Group mito-2

Hem14

Hem14


Nearest neighbours ( genes)

correlation threshold

0.6

1.0

0.80


Biological Process (Gene Ontology)
Molecular Function (Gene Ontology)
Cellular Component (Gene Ontology)