Standard name
Human Ortholog
Description Guanine nucleotide exchange factor (GEF); involved in vesicle-mediated vacuolar transport, including Golgi-endosome trafficking and sorting through the multivesicular body (MVB); specifically stimulates the intrinsic guanine nucleotide exchange activity of Rab family members (Vps21p/Ypt52p/Ypt53p); partially redundant with GEF VPS9; required for localization of the CORVET complex to endosomes; contains a VPS9 domain

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 0.05 0 0 0 0 0 0.08 0 0 0 0 0 0 0 0 0 0 0 0.09 0
Bud 0 0 0.05 0 0 0 0 0 0 0 0.05 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
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 0 0.07 0 0 0 0 0 0 0
Cytoplasm 0.88 0.91 0.83 0.85 0.96 0.84 0.79 0.6 0.51 0.44 0.52 0.97 0.96 0.87 0.83 0.88 0.66 0.59 0.4 0.42 0.53 0.39
Endoplasmic Reticulum 0 0.06 0.15 0.09 0 0 0.05 0 0 0 0 0 0 0.05 0 0 0 0.05 0.09 0.06 0.06 0.05
Endosome 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.05 0 0.09 0.09 0.05 0.19 0.06 0
Golgi 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Mitochondria 0.05 0 0 0.12 0 0.16 0.22 0.54 0.51 0.68 0.57 0 0 0 0 0 0.1 0.1 0.26 0.06 0.16 0.14
Nucleus 0 0 0 0 0 0 0.07 0 0.08 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
Nucleolus 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
SpindlePole 0 0 0 0 0 0 0 0 0 0 0.05 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 0.05 0.05 0.09 0 0.07 0.14 0.12 0 0.12
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 9 2 0 0 0 1 0 5 1 0 1 0 3 5 1 4 9 1 0 3 1
Bud 5 4 2 0 0 0 1 0 0 1 1 1 0 0 1 0 2 2 0 0 0 0
Bud Neck 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 6 6 1 0 0 0
Bud Site 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0
Cell Periphery 0 5 1 0 0 1 0 0 0 4 0 0 0 4 11 4 0 0 0 0 0 0
Cytoplasm 252 268 34 55 51 87 84 21 32 47 11 62 22 103 125 102 214 196 35 12 19 15
Endoplasmic Reticulum 10 19 6 6 1 2 5 1 2 1 0 0 0 6 4 3 13 15 7 1 2 1
Endosome 11 3 0 0 0 0 0 0 0 0 0 0 0 4 8 1 28 31 4 5 2 1
Golgi 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 8 0 0 0 0
Mitochondria 13 1 0 8 0 17 24 19 32 73 12 0 1 3 1 3 32 33 23 1 5 5
Nucleus 2 1 0 1 1 2 7 1 5 2 0 0 0 1 1 3 0 0 0 0 0 0
Nuclear Periphery 0 0 0 0 0 0 0 1 1 0 0 0 0 0 0 0 0 0 0 0 0 1
Nucleolus 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 1
Peroxisomes 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 1 0 0 1 1 0 2 1 0 0 0 0
Vac/Vac Membrane 5 7 0 2 0 0 1 1 1 0 0 0 1 6 8 10 13 22 13 3 1 4
Unique Cell Count 285 294 41 65 53 104 107 35 63 108 21 64 23 118 151 116 326 333 91 30 36 39
Labelled Cell Count 298 318 45 72 53 109 123 45 78 130 25 65 24 131 165 127 326 333 91 30 36 39


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) 5.1 6.3 5.5 6.0 7.2 5.8 5.7 4.9 4.6 4.8 4.4 7.2 7.6 9.3 9.2 8.8
Std Deviation (1e-4) 0.7 0.9 0.5 1.3 1.3 1.3 1.3 1.2 0.7 0.8 1.1 1.6 1.8 1.6 1.6 1.6
Intensity Change (Log2) 0.13 0.39 0.09 0.06 -0.15 -0.25 -0.2 -0.33 0.4 0.47 0.76 0.75 0.68


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
Bud 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
Bud Site 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
Cytoplasm 0.2 2.2 0.1 -0.6 -2.2 -3.3 -4.3 -2.6 2.5 1.5 0.7 0 0.8
Endoplasmic Reticulum 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
Golgi 0 0 0 0 0 0 0 0 0 0 0 0 0
Mitochondria 0 0 0 3.3 5.4 0 0 0 0 0 0 0 0
Nucleus 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
Nucleolus 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
SpindlePole 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

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 1.0445 1.9544 1.3999 1.29 1.3957 1.2928 1.4236 1.3463 1.4913 0.8387 1.0445 1.5282 0.4365 1.2428 1.1541 1.1154 1.41 1.101
Actin 0.0124 0.0023 0.0018 0.0034 0.0007 0.0045 0.0716 0.0055 0.026 0.0678 0.0614 0.0107 0.0079 0.001 0.0035 0.0273 0.03 0.0004
Bud 0.0016 0.0045 0.0064 0.0118 0.0003 0.0016 0.0024 0.0016 0.008 0.0005 0.0054 0.0041 0.0005 0.0094 0.0067 0.0032 0.0173 0.0008
Bud Neck 0.0053 0.0007 0.0008 0.0022 0.0006 0.0056 0.0083 0.0008 0.0022 0.0006 0.002 0.0015 0.0005 0.0004 0.0008 0.0007 0.0243 0.0019
Bud Periphery 0.0022 0.0032 0.0055 0.0084 0.0004 0.0031 0.0047 0.0013 0.0141 0.0005 0.0092 0.006 0.0003 0.003 0.0057 0.0048 0.0274 0.0007
Bud Site 0.0095 0.0232 0.0044 0.0009 0.0003 0.0005 0.021 0.0208 0.0125 0.0009 0.0057 0.0047 0.0067 0.0184 0.005 0.0102 0.0108 0.0009
Cell Periphery 0.0008 0.0006 0.0006 0.0003 0.0001 0.0002 0.0028 0.0005 0.001 0.0002 0.0003 0.0002 0.0004 0.0006 0.0004 0.0016 0.0018 0.0002
Cytoplasm 0.4342 0.6031 0.4978 0.5001 0.5759 0.6403 0.3386 0.5099 0.5065 0.4892 0.3187 0.5248 0.5333 0.7354 0.6672 0.603 0.4345 0.6785
Cytoplasmic Foci 0.0724 0.0507 0.0846 0.0862 0.0706 0.0739 0.0678 0.0548 0.0565 0.0421 0.1072 0.061 0.0748 0.0537 0.0618 0.0729 0.0824 0.0529
Eisosomes 0.0004 0.0002 0.0003 0.0001 0 0 0.0012 0.0001 0.0002 0.0001 0.0003 0.0001 0.0002 0 0.0001 0.0014 0.0001 0
Endoplasmic Reticulum 0.0053 0.0048 0.005 0.003 0.0022 0.0033 0.0167 0.0074 0.0065 0.0053 0.0087 0.0048 0.019 0.0061 0.0089 0.0112 0.0103 0.0074
Endosome 0.0898 0.0804 0.1024 0.1032 0.1541 0.0947 0.0797 0.0551 0.0888 0.0803 0.1122 0.0613 0.0891 0.0577 0.0979 0.162 0.1603 0.0741
Golgi 0.018 0.0084 0.0232 0.0105 0.0539 0.0134 0.0166 0.008 0.0098 0.0069 0.0197 0.0097 0.0103 0.0056 0.0104 0.0116 0.0109 0.0038
Lipid Particles 0.0071 0.0013 0.0027 0.0015 0.007 0.0033 0.0103 0.0012 0.0036 0.0007 0.0064 0.0069 0.0031 0.0005 0.0014 0.0026 0.0039 0.0006
Mitochondria 0.018 0.0082 0.0304 0.0149 0.0275 0.0127 0.0118 0.0024 0.0055 0.001 0.0148 0.0078 0.003 0.0018 0.0034 0.0092 0.0035 0.0024
None 0.2884 0.1901 0.2118 0.2202 0.09 0.1266 0.2919 0.3164 0.215 0.289 0.2783 0.2741 0.2348 0.0963 0.106 0.0481 0.1211 0.163
Nuclear Periphery 0.002 0.0009 0.0017 0.001 0.0006 0.0009 0.0103 0.0011 0.0045 0.0011 0.0075 0.0038 0.0019 0.001 0.0023 0.0028 0.0047 0.0011
Nucleolus 0.0018 0.0005 0.0013 0.0002 0.0001 0.0002 0.0009 0.0003 0.0017 0.0001 0.0013 0.0002 0.0003 0.0002 0.0004 0.0003 0.0069 0.0004
Nucleus 0.0028 0.003 0.0026 0.0019 0.001 0.0014 0.0034 0.0018 0.0056 0.0014 0.0094 0.0022 0.0011 0.0017 0.0023 0.002 0.0138 0.0015
Peroxisomes 0.0093 0.002 0.0039 0.0223 0.0016 0.0045 0.0201 0.0017 0.0103 0.0006 0.0124 0.0087 0.0037 0.0007 0.001 0.0013 0.0021 0.0006
Punctate Nuclear 0.0034 0.001 0.0015 0.0015 0.0004 0.0011 0.0059 0.0023 0.0055 0.0007 0.0076 0.0023 0.0015 0.001 0.0017 0.0012 0.0123 0.0015
Vacuole 0.0126 0.0094 0.0092 0.005 0.0094 0.0059 0.0113 0.0061 0.0135 0.0095 0.0079 0.0038 0.0068 0.0046 0.0109 0.016 0.0175 0.0059
Vacuole Periphery 0.0026 0.0014 0.0026 0.0015 0.0033 0.0022 0.0026 0.0009 0.0028 0.0017 0.0038 0.0013 0.0011 0.0009 0.0025 0.0065 0.0041 0.0014

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 6.9 8.5818 5.1741 12.5598 7.3903 9.5947 12.7445 13.36 12.2281 11.6432
Translational Efficiency 1.152 1.1374 1.6284 0.7014 1.0214 1.0296 0.8409 0.7699 0.9407 0.8904

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
2279 1466 1880 229 1860 1673 1609 2043 4139 3139 3489 2272

Protein Abundance

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
Mean 667.73 740.82 1053.15 1019.17 739.70 768.99 910.69 916.98 700.07 755.83 987.45 927.28
Standard Deviation 76.77 127.67 122.95 141.00 88.70 100.92 132.02 145.25 89.79 115.06 145.69 148.06
Intensity Change Log 2 0.149858 0.657374 0.610058 0.056025 0.300020 0.309950 0.101304 0.480614 0.460128

Localization Score (DeepLoc)

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
Actin 0.000413 0.000587 0.001363 0.001513 0.000695 0.000590 0.001260 0.000894 0.000540 0.000589 0.001315 0.000957
Bud Neck 0.029457 0.014235 0.005723 0.006013 0.012250 0.019218 0.006534 0.009594 0.021725 0.016891 0.006097 0.009233
Bud Site 0.017524 0.026088 0.022549 0.047021 0.011675 0.027109 0.016755 0.023560 0.014896 0.026632 0.019877 0.025925
Cell Periphery 0.000248 0.000111 0.000080 0.000132 0.000111 0.000139 0.000096 0.000145 0.000186 0.000126 0.000087 0.000144
Cytoplasm 0.354780* 0.348360* 0.607639* 0.400285* 0.328816* 0.292966* 0.462987* 0.391748* 0.343112* 0.318837* 0.540930* 0.392608*
Cytoplasmic Foci 0.352044* 0.345340* 0.135780 0.212289* 0.413979* 0.345990* 0.158233 0.148630 0.379877* 0.345686* 0.146135 0.155047
Eisosomes 0.000473 0.000094 0.000021 0.000043 0.000240 0.000176 0.000051 0.000078 0.000368 0.000138 0.000035 0.000075
Endoplasmic Reticulum 0.004019 0.002814 0.002571 0.001395 0.003608 0.002005 0.004166 0.001567 0.003834 0.002383 0.003307 0.001549
Endosome 0.036620 0.067639 0.017729 0.021766 0.052664 0.084034 0.041346 0.048461 0.043830 0.076377 0.028620 0.045771
Golgi 0.032013 0.023011 0.002681 0.001247 0.031714 0.035794 0.002397 0.004748 0.031878 0.029824 0.002550 0.004395
Lipid Particles 0.020148 0.010607 0.004431 0.005392 0.014679 0.010280 0.008843 0.008606 0.017690 0.010433 0.006465 0.008282
Mitochondria 0.019594 0.008751 0.000487 0.000089 0.007905 0.018320 0.000585 0.002912 0.014341 0.013851 0.000532 0.002628
Mitotic Spindle 0.000821 0.003034 0.030313 0.005241 0.000876 0.012137 0.017110 0.017858 0.000846 0.007886 0.024224 0.016586
None 0.004105 0.001973 0.001088 0.000302 0.000640 0.001281 0.001048 0.003774 0.002548 0.001604 0.001069 0.003424
Nuclear Periphery 0.000213 0.000600 0.000940 0.000349 0.000165 0.000193 0.001617 0.000672 0.000191 0.000383 0.001252 0.000640
Nuclear Periphery Foci 0.000357 0.001368 0.005241 0.008483 0.000417 0.000283 0.007836 0.001325 0.000384 0.000790 0.006438 0.002047
Nucleolus 0.001226 0.001614 0.000517 0.000244 0.000358 0.000639 0.000974 0.000972 0.000836 0.001095 0.000728 0.000899
Nucleus 0.040878 0.016343 0.050569 0.016809 0.019124 0.012093 0.044440 0.042701 0.031102 0.014078 0.047742 0.040091
Peroxisomes 0.007918 0.007294 0.003639 0.005735 0.007446 0.008788 0.006414 0.007568 0.007706 0.008090 0.004919 0.007383
Vacuole 0.071128 0.110098 0.105570 0.265211* 0.086885 0.116710 0.215728* 0.280700* 0.078209 0.113622 0.156371 0.279139*
Vacuole Periphery 0.006021 0.010040 0.001070 0.000441 0.005753 0.011255 0.001581 0.003486 0.005901 0.010688 0.001306 0.003179

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 -2.01 -3.19 -3.67 -2.89 -0.33 0.63 -2.02 -0.12 -0.83 1.98 -0.59 -3.78 -1.78 -1.45 2.15
Bud Neck 9.15 16.26 16.19 7.48 1.07 -4.90 5.99 3.57 7.98 -3.05 4.24 16.95 13.74 9.07 -3.54
Bud Site -4.65 -1.73 -3.89 -2.29 -3.24 -8.54 -2.35 -5.37 3.26 -2.42 -8.99 -2.71 -4.64 2.62 -2.15
Cell Periphery 6.06 7.40 5.14 -0.92 -3.45 -2.30 3.49 -0.12 1.22 -1.20 4.29 7.92 3.53 0.70 -1.65
Cytoplasm 0.65 -26.67 -1.35 -1.61 10.78 4.17 -13.02 -8.29 -12.07 5.20 3.90 -27.77 -7.79 -10.35 15.25
Cytoplasmic Foci 1.03 38.11 14.08 12.84 -3.75 9.26 40.87 44.94 32.75 1.95 6.68 55.30 50.18 39.24 -0.76
Eisosomes 14.10 17.36 16.46 6.62 -5.10 2.98 10.82 9.84 8.33 -1.92 12.78 20.29 18.14 8.81 -4.83
Endoplasmic Reticulum 2.09 2.66 5.05 3.60 3.38 4.01 -0.20 6.25 2.91 7.21 4.05 2.06 7.62 4.64 7.23
Endosome -10.04 11.61 8.13 15.12 0.42 -9.61 6.48 5.19 13.88 -1.37 -14.49 12.01 3.47 15.66 -5.95
Golgi 5.19 24.55 25.93 16.35 4.90 -1.81 20.29 18.59 18.11 -2.78 1.52 31.74 28.20 22.21 -2.37
Lipid Particles 7.41 15.44 9.66 3.54 -0.89 3.84 6.55 7.22 3.08 0.85 8.32 15.90 12.22 4.23 -1.28
Mitochondria 7.71 15.49 15.82 12.51 8.40 -6.26 11.29 6.61 9.87 -2.70 0.45 18.56 13.62 11.60 -2.69
Mitotic Spindle -4.35 -13.17 -4.48 -2.40 9.75 -6.35 -8.87 -9.01 -2.11 0.00 -7.20 -15.83 -9.33 -4.41 3.78
None 3.22 6.72 8.51 3.44 9.08 -1.79 -2.37 -2.56 -1.65 -2.13 2.42 5.84 0.04 -1.13 -1.98
Nuclear Periphery -1.91 -6.87 -2.43 0.67 4.66 -0.95 -9.57 -8.56 -7.75 5.95 -1.98 -11.57 -7.97 -2.77 6.51
Nuclear Periphery Foci -3.99 -12.61 -3.88 -3.38 -1.19 2.08 -10.95 -5.13 -5.87 8.92 -3.34 -16.40 -6.40 -4.63 9.45
Nucleolus -1.21 3.49 6.19 4.51 3.56 -2.65 -5.02 -7.11 -2.37 0.46 -1.56 0.27 -0.39 1.35 -0.69
Nucleus 14.70 -7.34 10.65 -0.37 15.55 6.57 -14.22 -9.11 -12.73 4.25 16.51 -14.16 -2.18 -11.90 8.58
Peroxisomes 0.96 8.31 5.41 4.48 -1.11 -1.99 2.07 1.64 3.60 -0.52 -0.89 6.81 2.88 3.57 -2.48
Vacuole -9.34 -13.47 -15.19 -12.78 -11.50 -6.39 -24.48 -35.28 -28.00 -8.51 -11.32 -26.66 -41.11 -32.84 -20.08
Vacuole Periphery -5.15 14.88 16.97 14.05 7.34 -6.57 13.40 6.23 9.96 -3.19 -8.29 19.97 8.31 13.10 -3.51