Standard name
Human Ortholog
Description Rab GTPase-activating protein; regulates endocytosis via inactivation of Vps21p at endosomes and vacuole fusion via inactivation of Ypt7p at vacuoles; also acts on Ypt52p and Sec4p; localizes to plasma membrane, sites of polarized growth; relocalizes from bud neck to cytoplasm upon DNA replication stress; similar to TBC-domain Tre2 oncogene; MSB3 has a paralog, MSB4, that arose from the whole genome duplication; human homolog USP6NL can complement yeast msb3 msb4 double null
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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 0.16 0.13 0.11 0.13 0.1 0.14 0.07 0.08 0 0.06 0 0 0 0 0 0.07 0.05 0.1 0.15 0.1 0.14 0.1 0.14 0.1
Bud 0.08 0.05 0.11 0 0.08 0 0.05 0 0 0 0 0.07 0 0 0 0 0 0.06 0.09 0.09 0.07 0.17 0.13 0.17
Bud Neck 0 0 0.06 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.11 0.14 0.09 0.19 0.17 0.08
Bud Site 0 0 0 0 0 0.06 0 0 0 0 0 0 0 0 0 0 0 0 – – – – – –
Cell Periphery 0.05 0 0.11 0.05 0 0 0 0.05 0.05 0.05 0 0 0 0 0.1 0.15 0.13 0 0 0 0.06 0 0 0
Cytoplasm 0.79 0.78 0.89 0.82 0.82 0.76 0.85 0.8 0.72 0.8 0.68 0.69 0.96 0.98 0.99 0.86 0.79 0.81 0.57 0.57 0.42 0.45 0.48 0.55
Endoplasmic Reticulum 0 0 0 0 0 0.06 0.05 0 0 0 0 0 0 0 0 0.06 0.05 0.09 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 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 0
Mitochondria 0 0 0 0 0 0 0.05 0.05 0.33 0.13 0.5 0.31 0 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 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 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 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 0
SpindlePole 0 0 0.06 0 0.08 0 0 0.07 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 0 0.09 0.07 0 0 0.05 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 24 28 2 16 14 19 13 16 3 10 0 2 3 3 0 11 7 13 24 23 8 8 29 27
Bud 13 11 2 4 11 4 10 5 6 7 5 10 3 3 0 7 3 8 15 22 4 15 27 45
Bud Neck 2 6 1 2 2 0 0 1 1 0 0 0 1 0 0 1 4 0 17 32 5 17 34 22
Bud Site 3 8 0 5 0 8 2 7 1 2 0 1 0 0 0 1 1 1 – – – – – –
Cell Periphery 8 7 2 6 2 4 1 10 7 8 0 4 5 10 21 24 19 6 4 1 4 4 4 7
Cytoplasm 122 170 16 97 119 105 161 157 106 142 79 102 124 237 211 139 119 110 97 135 26 40 101 146
Endoplasmic Reticulum 2 9 0 1 0 8 10 5 1 7 1 1 0 1 0 10 8 12 0 0 1 0 0 0
Endosome 0 1 0 1 2 1 0 2 2 0 0 0 1 0 1 2 3 2 1 4 0 0 2 2
Golgi 1 0 0 0 2 0 0 0 0 0 0 0 0 0 0 0 0 0 1 3 0 0 0 0
Mitochondria 3 2 0 1 0 5 10 10 49 23 58 46 0 1 0 1 1 4 2 5 3 0 3 4
Nucleus 0 1 0 1 1 0 1 2 3 2 0 1 2 0 2 1 1 3 0 0 0 0 0 0
Nuclear Periphery 1 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 1 0 0 1 0 0 1 0 0 0 0 0 1 0 0 0 0 0 0
Peroxisomes 0 0 0 0 0 3 0 0 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0
SpindlePole 2 7 1 5 11 3 3 14 2 2 0 3 0 1 0 7 5 1 0 2 0 1 2 1
Vac/Vac Membrane 0 3 0 0 1 0 2 0 3 1 4 3 1 0 1 5 13 9 0 4 3 1 0 1
Unique Cell Count 154 219 18 119 146 138 189 196 147 177 117 147 129 243 213 162 151 136 169 238 63 91 211 266
Labelled Cell Count 181 253 24 139 165 161 213 229 186 205 147 174 140 256 236 209 184 170 169 238 63 91 211 266


Ambiguous

(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) 4.9 5.7 7.1 5.9 6.6 5.4 5.7 5.8 5.0 5.3 5.0 4.8 6.6 6.4 6.4 7.9 8.4 7.4 6.7 6.3 6.5
Std Deviation (1e-4) 0.6 0.7 3.3 1.3 1.7 0.8 1.2 1.3 1.2 1.3 1.6 1.1 1.1 0.8 0.9 1.4 3.5 1.4 1.6 1.1 1.2
Intensity Change (Log2) – – – -0.27 -0.1 -0.39 -0.33 -0.29 -0.5 -0.42 -0.52 -0.56 -0.11 -0.15 -0.15 0.15 0.24 0.07 -0.08 -0.17 -0.12


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 0
Bud 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
Bud Site 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
Cytoplasm -0.8 -0.8 -1.2 -0.4 -0.9 -1.5 -0.9 -1.8 -1.7 1.4 2.1 3.2 -0.4 -1.0 -0.8
Endoplasmic Reticulum 0 0 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 0 0
Golgi 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Mitochondria 0 0 0 0 0 2.9 0 4.0 0 0 0 0 0 0 0
Nucleus 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
Nucleolus 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
SpindlePole 0 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 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 -0.093 0.1227 0.0512 -0.0117 0.0234 0.1077 0.3047 0.612 0.5769 0.3612 0.5915 0.6173 0.4428 0.4278 0.347 0.0149 -0.2261 0.2634
Actin 0.0298 0.0147 0.0198 0.0077 0.0298 0.0205 0.0554 0.0036 0.0311 0.0056 0.0323 0.0166 0.0794 0.0076 0.0377 0.0086 0.0015 0.003
Bud 0.0184 0.0105 0.0949 0.0112 0.0066 0.0068 0.0062 0.0029 0.0704 0.0041 0.0061 0.0046 0.0145 0.0119 0.1219 0.0291 0.0003 0.0003
Bud Neck 0.0225 0.0077 0.0087 0.0008 0.001 0.4097 0.0138 0.0061 0.0026 0.0059 0.0021 0.4405 0.0157 0.0041 0.0016 0.0006 0.0003 0.5901
Bud Periphery 0.0482 0.024 0.2635 0.0712 0.0318 0.005 0.0231 0.0087 0.2415 0.0178 0.052 0.0152 0.0289 0.0122 0.2155 0.2585 0.0007 0.0004
Bud Site 0.0726 0.1471 0.0361 0.0016 0.0022 0.0027 0.052 0.1352 0.0231 0.0027 0.0031 0.0019 0.0445 0.1076 0.0239 0.0013 0.0004 0.0006
Cell Periphery 0.0096 0.0059 0.0051 0.0077 0.0053 0.0022 0.0136 0.0089 0.0082 0.0088 0.004 0.0029 0.0081 0.0053 0.0053 0.0102 0.0011 0.0006
Cytoplasm 0.4138 0.4462 0.2689 0.5576 0.4876 0.3306 0.499 0.4981 0.2844 0.5852 0.4455 0.3152 0.4744 0.5193 0.4014 0.3511 0.4867 0.3237
Cytoplasmic Foci 0.045 0.0208 0.0155 0.0309 0.0271 0.0248 0.0322 0.006 0.0131 0.0382 0.0287 0.0209 0.0406 0.0243 0.0223 0.0027 0.0056 0.006
Eisosomes 0.0015 0.0006 0.0008 0.0006 0.0006 0.0003 0.0012 0.0005 0.0006 0.0001 0.0007 0.0002 0.0009 0.0002 0.0009 0.0002 0.0002 0
Endoplasmic Reticulum 0.0045 0.0037 0.0056 0.0084 0.0046 0.0023 0.0089 0.0045 0.004 0.0045 0.0013 0.0017 0.0046 0.0025 0.0033 0.0035 0.004 0.004
Endosome 0.0212 0.0028 0.0084 0.0229 0.0339 0.0067 0.0118 0.0012 0.02 0.0049 0.0357 0.0033 0.0111 0.0038 0.0092 0.0006 0.0053 0.0203
Golgi 0.0084 0.0012 0.004 0.0116 0.0298 0.0031 0.0053 0.0006 0.0072 0.0012 0.026 0.0023 0.009 0.0015 0.0095 0.0002 0.0063 0.0043
Lipid Particles 0.0245 0.001 0.001 0.0045 0.0266 0.002 0.0134 0.0005 0.0102 0.0013 0.0082 0.0003 0.024 0.0008 0.0059 0.0002 0.0663 0.0006
Mitochondria 0.0076 0.0007 0.014 0.0082 0.0169 0.002 0.0048 0.0006 0.0037 0.0006 0.1067 0.0004 0.0195 0.0003 0.0047 0.0004 0.0181 0.0032
None 0.2258 0.3059 0.2406 0.2429 0.258 0.172 0.2346 0.3174 0.2555 0.2961 0.2205 0.1707 0.1899 0.2946 0.1171 0.3296 0.3961 0.0387
Nuclear Periphery 0.0025 0.0004 0.0014 0.0014 0.0029 0.0006 0.0024 0.0004 0.0012 0.0011 0.0002 0.0001 0.0006 0.0003 0.0011 0.0005 0.0006 0.0016
Nucleolus 0.0078 0.0004 0.0006 0.0003 0.0002 0.0003 0.0006 0.0004 0.0005 0.0005 0.0002 0.0001 0.0005 0.0001 0.0013 0.0001 0.0002 0
Nucleus 0.0043 0.0017 0.0018 0.0011 0.0006 0.0014 0.0014 0.0012 0.0013 0.0019 0.0004 0.0005 0.0007 0.0008 0.0032 0.0008 0.0006 0.0006
Peroxisomes 0.0167 0.0007 0.0027 0.0033 0.0299 0.0025 0.0136 0.0002 0.0144 0.0013 0.0231 0.0012 0.0283 0.0006 0.009 0.0001 0.003 0.0005
Punctate Nuclear 0.0069 0.001 0.0012 0.0023 0.0013 0.003 0.002 0.0007 0.0005 0.0132 0.0003 0.0003 0.0022 0.0006 0.0021 0.0003 0.0004 0.0004
Vacuole 0.0075 0.0027 0.0045 0.0032 0.002 0.0011 0.0039 0.0022 0.0055 0.0046 0.0019 0.0008 0.0021 0.0015 0.0027 0.0013 0.0016 0.0007
Vacuole Periphery 0.0009 0.0002 0.0009 0.0006 0.0012 0.0002 0.0007 0.0001 0.0008 0.0004 0.0007 0.0001 0.0003 0.0001 0.0005 0.0001 0.0008 0.0004

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 6.3814 6.7418 6.9268 7.844 3.7608 5.7981 12.1913 9.9093 8.8673 8.2658
Translational Efficiency 1.2978 1.4811 1.142 1.395 2.357 2.4956 0.935 1.2109 1.3568 1.2789

Hit Data

Dataset Hit
Protein Concentration ✔
Protein Localization ✘
Gene Expression ✔
Translational Efficiency ✘
Standard name
Human Ortholog
Description Rab GTPase-activating protein; regulates endocytosis via inactivation of Vps21p at endosomes and vacuole fusion via inactivation of Ypt7p at vacuoles; also acts on Ypt52p and Sec4p; localizes to plasma membrane, sites of polarized growth; relocalizes from bud neck to cytoplasm upon DNA replication stress; similar to TBC-domain Tre2 oncogene; MSB3 has a paralog, MSB4, that arose from the whole genome duplication; human homolog USP6NL can complement yeast msb3 msb4 double null
Localization
Cell Percentages cytoplasm (54%)
Cell Cycle Regulation No
Subcompartmental Group cytoplasm-10

Msb3

Msb3


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 (Msb3-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