Standard name
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
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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 0.05 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 Abundance ✘
Protein Localization ✘
Gene Expression ✘
Translational Efficiency ✘