Standard name
Human Ortholog
Description (SGD) FG-nucleoporin component of central core of the nuclear pore complex; contributes directly to nucleocytoplasmic transport and maintenance of the nuclear pore complex (NPC) permeability barrier; forms a stable association with Nup82p, Gle2p and two other FG-nucleoporins (Nsp1p and Nup159p); NUP116 has a paralog, NUP100, that arose from the whole genome duplication
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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 0.97 0.97 0.97 0.97 0.94 0.9 0.77 0.76 0.64 0.63 0.61 0.58 1.0 0.97 0.99 – 0.97 0.96 0.9 0.92 0.84 0.85 0.82 0.85
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 – 0.06 0.08 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 0.09 0 0.25 0.27 0.31 0.49 0.51 0.44 0.5 0 0 0 – 0 0 0 0 0.06 0 0 0
Nucleus 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 – 0 0 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 0.06 0 0.07 0.07 0.07 0.1 0.07 0.09 0 0 0 – 0 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 0 0 0 0 0 0 0 0 0 0 0 0 – 0 0 0 1 1 0 1 2
Bud 0 1 0 0 0 0 4 5 6 3 3 6 0 0 0 – 0 0 5 1 2 2 4 7
Bud Neck 0 0 0 0 0 0 0 1 1 0 0 1 0 0 1 – 2 0 1 0 0 1 0 1
Bud Site 0 0 0 0 0 0 0 0 1 1 0 1 0 0 0 – 0 0 – – – – – –
Cell Periphery 1 0 0 1 1 1 8 3 3 2 6 5 0 0 0 – 2 4 0 0 0 0 0 0
Cytoplasm 268 204 208 138 165 180 244 247 154 194 134 165 58 58 72 – 271 343 255 196 170 84 150 152
Endoplasmic Reticulum 4 1 3 0 1 0 1 0 2 1 3 1 0 2 0 – 18 27 1 1 2 1 1 0
Endosome 1 0 1 0 2 0 3 0 1 2 1 3 0 0 0 – 2 1 3 0 3 0 3 1
Golgi 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 – 0 3 0 1 0 0 0 0
Mitochondria 4 4 3 13 5 51 85 100 118 156 96 142 0 0 1 – 8 13 6 3 12 2 7 3
Nucleus 0 2 0 1 0 0 4 3 3 5 3 7 0 0 1 – 1 1 0 0 0 0 1 0
Nuclear Periphery 0 1 0 0 0 0 1 2 2 1 1 3 0 0 0 – 0 0 1 0 0 0 1 0
Nucleolus 0 0 0 0 0 0 0 1 1 0 1 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 2 3 2 1 1 3 0 0 1 – 0 0 1 0 2 2 1 0
Vac/Vac Membrane 1 0 3 2 10 7 22 22 18 31 16 25 0 0 0 – 2 5 3 2 1 1 2 4
Unique Cell Count 277 210 215 143 175 201 317 324 242 307 218 284 58 60 73 278 356 284 213 202 100 183 179
Labelled Cell Count 279 213 218 155 184 239 374 387 312 397 265 362 58 60 76 306 397 284 213 202 100 183 179


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) 5.3 5.6 5.7 5.9 5.7 4.8 4.8 5.1 5.0 4.2 4.4 4.2 6.3 6.3 6.1 4.8 5.0 6.3 5.9 7.0 7.2
Std Deviation (1e-4) 1.3 1.5 2.7 2.7 2.4 1.5 2.0 2.0 1.9 1.2 1.6 1.4 1.2 1.2 1.4 1.5 1.3 2.1 1.4 2.1 2.3
Intensity Change (Log2) – – – 0.07 -0.0 -0.24 -0.25 -0.15 -0.19 -0.42 -0.35 -0.44 0.15 0.15 0.1 -0.24 -0.19 0.15 0.07 0.3 0.35


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 -0.1 -1.2 -2.9 -6.3 -6.4 -8.7 -9.0 -9.0 -9.8 1.4 0 0.8 – 0.5 -0.2
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 0 0 0 – 2.8 3.2
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 3.5 0 0 0 8.5 11.5 0 0 0 0 0 0 – 0 1.6
Nucleus 0 0 0 0 0 0 0 0 0 0 0 0 – 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 2.4 0 3.0 2.9 3.1 4.0 3.0 3.6 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 2.9299 4.2911 3.3912 3.2546 3.1656 3.2556 5.4251 6.5178 6.4475 4.927 4.7597 5.5126 5.232 6.1088 6.2933 4.5448 3.8412 5.1937
Actin 0.0323 0.0097 0.0414 0.0141 0.0221 0.0007 0.0403 0.0008 0.0011 0.0085 0.0005 0.0047 0.1001 0.0022 0.0135 0.0026 0.004 0.0003
Bud 0.0002 0.0002 0.0004 0.0004 0.0093 0 0.0006 0.0002 0.0015 0.0014 0.0004 0.0001 0.0018 0 0.0004 0.0014 0.0004 0
Bud Neck 0.0002 0.0008 0.0003 0.0004 0.0047 0.0006 0.0041 0.0001 0.001 0.0016 0.0004 0.0011 0.001 0.0002 0.0005 0.0005 0.0007 0.0006
Bud Periphery 0.0002 0.0002 0.0005 0.0002 0.0131 0 0.0006 0.0001 0.0023 0.0015 0.001 0.0001 0.0025 0 0.0002 0.009 0.0002 0
Bud Site 0.0009 0.0071 0.0012 0.0011 0.0309 0 0.0291 0.0006 0.0112 0.004 0.0001 0.0001 0.0084 0.0002 0.0008 0.0002 0.0001 0
Cell Periphery 0.0001 0.0008 0.0002 0 0.0009 0 0.0006 0.0001 0.0004 0.0001 0 0 0.0023 0.0001 0.0001 0.0001 0 0
Cytoplasm 0.5742 0.8188 0.715 0.7732 0.6579 0.8846 0.6406 0.8354 0.8457 0.657 0.8711 0.8472 0.6492 0.7271 0.8417 0.8372 0.9743 0.9095
Cytoplasmic Foci 0.045 0.0106 0.0029 0.0174 0.061 0.0115 0.0571 0.0023 0.0146 0.0437 0.0044 0.0126 0.0067 0.0019 0.0258 0.017 0.0052 0.003
Eisosomes 0.0002 0.0003 0.0005 0 0.0001 0 0.0004 0 0 0.0001 0 0 0.0014 0.0002 0 0.0002 0 0
Endoplasmic Reticulum 0.0066 0.0017 0.0017 0.0095 0.0016 0.0017 0.0046 0.0017 0.002 0.0021 0.0019 0.0013 0.1092 0.0027 0.0024 0.0022 0.0019 0.0017
Endosome 0.0281 0.0188 0.001 0.005 0.013 0.013 0.011 0.0006 0.0097 0.0147 0.0014 0.0028 0.027 0.0002 0.0196 0.009 0.0014 0.0006
Golgi 0.0063 0.0022 0.0016 0.0026 0.013 0.002 0.0066 0.0001 0.0014 0.0169 0.0001 0.0016 0.0127 0.0002 0.0225 0.0019 0.0002 0
Lipid Particles 0.0318 0.0007 0.0008 0.0009 0.0193 0.0039 0.0199 0 0.0034 0.0037 0 0.0017 0.002 0.0001 0.001 0.0031 0 0
Mitochondria 0.0027 0.0003 0.013 0.0009 0.0061 0.0006 0.0024 0.0001 0.0003 0.0159 0.0002 0.0133 0.0114 0.0001 0.0112 0.0145 0.0001 0
None 0.2069 0.1233 0.2103 0.1362 0.1188 0.0708 0.1507 0.1541 0.0967 0.1801 0.1119 0.101 0.0287 0.2631 0.0526 0.0826 0.0066 0.0766
Nuclear Periphery 0.0155 0.0006 0.0005 0.0017 0.001 0.0011 0.0025 0.0006 0.0013 0.0009 0.0009 0.0008 0.0233 0.0004 0.0007 0.002 0.001 0.0007
Nucleolus 0.0009 0.0001 0 0 0.0015 0 0.0002 0 0.0002 0.0004 0 0 0.0002 0.0001 0 0.0003 0 0
Nucleus 0.0052 0.0013 0.0021 0.0028 0.0034 0.006 0.0028 0.0021 0.0032 0.0031 0.0041 0.004 0.0048 0.0009 0.0019 0.0018 0.0024 0.0062
Peroxisomes 0.0305 0.0002 0.0058 0.0316 0.0177 0.0012 0.0142 0 0.0009 0.0393 0.0001 0.0038 0.0005 0.0001 0.0031 0.011 0.0001 0
Punctate Nuclear 0.0083 0.0007 0.0003 0.001 0.0022 0.0017 0.0105 0.0003 0.0011 0.0037 0.0007 0.0034 0.0016 0.0002 0.0008 0.001 0.001 0.0004
Vacuole 0.0024 0.0012 0.0003 0.0005 0.0021 0.0003 0.001 0.0006 0.0018 0.0008 0.0004 0.0002 0.003 0.0001 0.0008 0.0014 0.0002 0.0001
Vacuole Periphery 0.0016 0.0003 0.0001 0.0001 0.0004 0.0001 0.0004 0.0001 0.0002 0.0003 0.0001 0.0001 0.0022 0 0.0005 0.0009 0.0001 0

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 35.9878 33.0563 36.3558 45.0866 45.1615 43.8874 48.4189 44.5126 44.3151 49.1663
Translational Efficiency 1.6466 1.6884 1.366 1.1267 1.3174 1.5801 0.9943 1.1162 1.2189 1.2033

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
1114 643 80 1144 1140 1199 530 2234 2254 1842 610 3378

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 805.49 837.31 918.26 878.53 674.64 816.08 838.02 864.06 739.31 823.49 848.54 868.96
Standard Deviation 111.56 139.41 127.12 148.92 103.57 117.36 116.28 135.36 125.92 125.90 120.84 140.27
Intensity Change Log 2 — 0.055895 0.189036 0.125225 — 0.274593 0.312867 0.357014 — 0.159703 0.246799 0.235509

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 0.002748 0.000408 0.000214 0.003405 0.000158 0.000359 0.000160 0.000500 0.001438 0.000376 0.000167 0.001484
Bud Neck 0.004492 0.009838 0.001903 0.011507 0.020028 0.021371 0.004290 0.007485 0.012350 0.017345 0.003977 0.008847
Bud Site 0.019903 0.021467 0.002162 0.068843 0.011261 0.013716 0.012181 0.029868 0.015532 0.016422 0.010867 0.043067
Cell Periphery 0.000152 0.000097 0.000191 0.000395 0.000354 0.000132 0.000128 0.000158 0.000254 0.000120 0.000136 0.000238
Cytoplasm 0.535647* 0.635271* 0.393154* 0.420807* 0.569233* 0.513755* 0.498781* 0.604343* 0.552633* 0.556173* 0.484929* 0.542187*
Cytoplasmic Foci 0.049840 0.119415 0.027277 0.043474 0.223879* 0.224191* 0.016442 0.018098 0.137863 0.187616* 0.017863 0.026692
Eisosomes 0.000066 0.000055 0.000080 0.000074 0.000221 0.000130 0.000040 0.000030 0.000144 0.000104 0.000045 0.000045
Endoplasmic Reticulum 0.001629 0.000615 0.003406 0.002107 0.001777 0.000427 0.001694 0.000955 0.001704 0.000493 0.001918 0.001345
Endosome 0.011580 0.010616 0.005093 0.022909 0.009238 0.022918 0.001727 0.003821 0.010395 0.018624 0.002168 0.010285
Golgi 0.003709 0.002210 0.000096 0.014541 0.003502 0.007273 0.000061 0.002140 0.003604 0.005505 0.000065 0.006340
Lipid Particles 0.003921 0.001687 0.003857 0.001576 0.008836 0.006368 0.001041 0.000723 0.006407 0.004734 0.001411 0.001012
Mitochondria 0.007229 0.005019 0.000238 0.010638 0.009681 0.011091 0.000274 0.001824 0.008469 0.008971 0.000269 0.004809
Mitotic Spindle 0.010337 0.007876 0.000968 0.066646 0.000955 0.008709 0.000895 0.021832 0.005592 0.008418 0.000905 0.037009
None 0.002957 0.006926 0.003342 0.007655 0.007617 0.002134 0.007018 0.005343 0.005314 0.003807 0.006536 0.006126
Nuclear Periphery 0.000875 0.000230 0.001613 0.002069 0.000260 0.000417 0.000851 0.000924 0.000564 0.000352 0.000951 0.001312
Nuclear Periphery Foci 0.001100 0.001192 0.002758 0.003338 0.000952 0.001311 0.001106 0.000448 0.001025 0.001270 0.001323 0.001427
Nucleolus 0.000748 0.000739 0.000686 0.000790 0.001475 0.001182 0.000309 0.000473 0.001116 0.001028 0.000359 0.000580
Nucleus 0.189794* 0.090739 0.458823* 0.132191* 0.083973 0.064351 0.380764* 0.217706* 0.136273* 0.073562 0.391001* 0.188745*
Peroxisomes 0.003845 0.006278 0.000402 0.003738 0.004739 0.012356 0.000188 0.000527 0.004297 0.010235 0.000216 0.001614
Vacuole 0.146307 0.078545 0.093513 0.174476 0.039459 0.086103 0.071935 0.079879 0.092267 0.083464 0.074765 0.111915
Vacuole Periphery 0.003120 0.000777 0.000224 0.008822 0.002404 0.001706 0.000113 0.002923 0.002758 0.001382 0.000127 0.004921

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 1.60 1.93 0.23 -2.44 -3.10 -3.16 -2.54 -1.84 0.13 -1.04 1.38 1.84 0.46 -2.08 -3.27
Bud Neck -3.81 2.26 -4.00 1.43 -6.05 -0.33 7.07 7.16 7.64 -1.50 -2.93 5.51 5.19 7.58 -2.19
Bud Site -1.43 5.00 -5.02 -2.96 -9.73 -1.43 0.63 -4.21 -2.83 -3.22 -1.63 1.61 -5.86 -4.03 -5.74
Cell Periphery 2.95 -1.97 -4.57 -5.66 -1.20 9.50 9.42 9.96 1.60 0.76 9.33 7.07 5.25 -3.57 -1.84
Cytoplasm -9.53 4.21 9.94 18.60 -0.23 4.95 9.50 4.92 -0.90 -6.58 -2.48 8.24 7.71 9.72 -3.65
Cytoplasmic Foci -11.93 3.08 5.96 14.90 0.10 0.04 35.14 36.37 34.25 0.12 -9.07 29.36 30.98 36.01 -0.87
Eisosomes 1.72 -1.21 -0.05 -1.55 1.17 5.39 10.76 12.16 12.04 4.86 4.23 10.00 12.10 10.31 2.88
Endoplasmic Reticulum 3.80 -4.66 -2.60 -9.77 3.46 3.54 -2.27 1.30 -9.69 6.69 5.12 -4.30 0.26 -13.66 6.45
Endosome -1.08 1.56 -0.60 0.62 -2.11 -8.93 11.80 9.50 14.07 -0.93 -7.90 9.77 5.40 11.74 -4.19
Golgi 0.18 2.77 -2.02 -2.10 -4.68 -3.21 12.38 4.82 5.21 -2.28 -2.86 7.04 0.99 3.47 -5.03
Lipid Particles 1.37 -0.65 1.73 1.31 2.34 1.94 8.02 8.49 5.54 3.97 1.36 6.95 7.93 5.64 3.30
Mitochondria -0.07 3.00 0.20 0.23 -4.05 -0.41 6.14 5.52 4.83 -5.02 -0.85 6.58 4.56 4.28 -5.52
Mitotic Spindle -0.20 -0.45 -7.28 -6.51 -2.07 -3.86 -1.63 -8.44 -3.07 -6.66 -2.38 -0.02 -9.98 -6.66 -7.84
None -2.48 -1.22 -2.79 0.91 -1.58 4.28 1.04 2.18 -4.58 1.64 1.43 -0.80 0.26 -1.44 1.23
Nuclear Periphery 11.88 -3.87 -5.76 -9.27 -1.54 -0.87 -14.17 -20.13 -6.36 -2.95 2.29 -10.16 -13.12 -10.43 -4.19
Nuclear Periphery Foci -1.57 -4.02 -2.81 -1.76 1.96 -0.38 -2.22 1.19 1.15 4.76 -0.66 -3.65 -0.34 0.51 3.76
Nucleolus -1.00 0.09 0.20 1.54 0.11 0.89 2.44 3.43 3.38 0.72 0.14 1.92 3.35 3.71 0.54
Nucleus 12.43 -6.94 3.40 -9.46 7.85 4.47 -24.70 -28.44 -34.11 10.87 14.03 -21.59 -15.31 -32.71 14.67
Peroxisomes -2.72 2.97 1.37 4.05 -3.60 -5.04 5.94 5.78 9.39 -1.95 -6.09 6.48 5.46 10.20 -4.39
Vacuole 13.67 3.48 -9.05 -22.19 -8.06 -11.98 -10.43 -23.26 -11.28 -2.94 7.31 0.16 -13.30 -22.61 -9.65
Vacuole Periphery 2.01 2.90 -1.26 -3.36 -4.12 2.00 8.03 1.67 0.33 -2.83 2.29 6.47 0.33 -1.51 -4.73
Standard name
Human Ortholog
Description (SGD) FG-nucleoporin component of central core of the nuclear pore complex; contributes directly to nucleocytoplasmic transport and maintenance of the nuclear pore complex (NPC) permeability barrier; forms a stable association with Nup82p, Gle2p and two other FG-nucleoporins (Nsp1p and Nup159p); NUP116 has a paralog, NUP100, that arose from the whole genome duplication
Localization
Cell Percentages cytoplasm (52%)
Cell Cycle Regulation No
Subcompartmental Group cytoplasm-9

Nup116

Nup116


Nearest neighbours ( genes)

correlation threshold

0.6

1.0

0.80


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