Standard name
Human Ortholog
Description Guanine nucleotide exchange factor (GEF) and ubiquitin receptor; involved in vesicle-mediated vacuolar transport, including Golgi-endosome trafficking and sorting through the multivesicular body (MVB); stimulates the intrinsic guanine nucleotide exchange activity of Rab family members (Vps21p/Ypt52p/Ypt53p); partially redundant with GEF MUK1; required for localization of the CORVET complex to endosomes; similar to mammalian ras inhibitors; contains a Ub-interacting CUE 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 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 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 0
Bud Site 0 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 0.07 0 0 0 0 0 0
Cytoplasm 0.98 0.99 0.97 0.89 0.89 0.84 0.77 0.73 0.62 0.65 0.6 0.6 0.98 0.99 0.99 0.97 0.95 0.96 0.91 0.96 0.92 0.95 0.94 0.96
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.07 0 0 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 0.08 0.1 0.3 0.36 0.36 0.51 0.48 0.51 0.55 0 0 0 0 0 0 0 0 0 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 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 0.05 0 0 0.05 0.06 0.1 0.06 0.07 0.07 0 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 1 0 1 0 1 0 0 0 0 1 0 0 0 1 0 0 0 0 1 0 1 0
Bud 0 0 3 2 3 0 2 7 11 19 15 13 0 0 0 0 2 0 1 0 0 0 1 1
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 0
Bud Site 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0
Cell Periphery 0 0 5 5 1 10 2 7 6 9 9 11 4 5 5 4 4 14 0 0 0 0 0 0
Cytoplasm 125 225 299 163 279 336 319 403 266 355 278 342 431 685 685 133 187 206 116 215 285 361 584 531
Endoplasmic Reticulum 1 1 2 3 1 2 1 2 3 3 0 3 4 2 3 9 8 3 0 1 3 1 3 0
Endosome 0 0 2 3 3 1 0 3 0 2 0 0 0 2 3 1 2 4 1 0 4 2 8 5
Golgi 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 1 0 0 1 0 2 2
Mitochondria 5 2 5 15 31 120 151 197 218 259 235 312 2 0 0 0 3 1 0 1 4 1 3 1
Nucleus 2 0 0 0 0 1 5 3 1 7 2 6 2 2 2 0 2 0 0 1 0 1 2 1
Nuclear Periphery 0 0 0 0 0 0 0 1 1 1 4 1 0 0 0 0 1 0 0 0 0 0 0 0
Nucleolus 0 0 0 0 0 1 1 1 1 0 2 0 0 0 0 0 1 1 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 0 0 0 0 0 0 0 0 0 0 2 1 0 0 2 2 0 0 2 1 1
Vac/Vac Membrane 0 0 7 10 10 8 22 33 42 33 31 41 1 8 8 2 5 5 1 1 4 3 5 1
Unique Cell Count 128 228 309 183 314 400 415 551 426 545 461 570 439 695 695 137 197 214 129 223 311 381 622 552
Labelled Cell Count 133 228 324 201 329 479 504 657 550 688 576 730 445 706 707 150 215 237 129 223 311 381 622 552


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) 7.8 10.5 8.3 7.6 7.0 5.8 5.5 5.4 4.9 5.0 4.5 4.5 9.5 9.4 9.4 12.2 11.8 12.2 9.6 9.4 10.2
Std Deviation (1e-4) 1.3 1.4 1.2 1.3 1.7 1.4 1.6 1.3 0.9 1.2 1.2 0.9 1.2 1.1 1.1 2.3 2.2 2.4 1.3 1.4 1.4
Intensity Change (Log2) -0.14 -0.25 -0.51 -0.6 -0.62 -0.77 -0.74 -0.9 -0.89 0.19 0.17 0.17 0.55 0.5 0.56 0.21 0.18 0.29


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 1.6 2.2 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 0.8 0 0 0 0 0 0 0 0 0 0 0 3.0
Cytoplasm -3.4 -3.8 -5.5 -7.5 -8.6 -10.9 -10.5 -11.4 -11.7 1.2 1.9 1.9 0.2 -1.0 -0.3
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 3.6 4.4 9.8 11.3 11.3 14.4 13.9 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 1.9 0.7 -0.2 2.1 2.5 4.1 2.5 2.8 3.1 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 5.8644 7.5249 6.9591 6.3659 6.2142 6.7904 3.7492 5.409 4.8811 4.4559 4.3324 4.7785 3.4293 5.2512 4.4774 4.1491 3.9857 4.3167
Actin 0.0081 0.0002 0.0049 0.0036 0.0007 0.0013 0.0143 0.0003 0.0105 0.0393 0.0302 0.0029 0.0309 0.0002 0.0004 0.0006 0.022 0.0095
Bud 0.0002 0.0001 0.0002 0.0002 0.0001 0.0001 0.001 0.0001 0.0003 0.0005 0.0004 0.0001 0.0017 0.0001 0.0001 0.0004 0.0056 0.0001
Bud Neck 0.0069 0.0001 0.0003 0.0004 0.0005 0.001 0.0019 0.0001 0.0004 0.0006 0.0007 0.0007 0.0007 0.0001 0.0001 0.0002 0.0008 0.0005
Bud Periphery 0.0002 0 0.0001 0.0001 0 0 0.0011 0 0.0003 0.0005 0.0008 0.0001 0.0016 0 0 0.0004 0.0039 0.0001
Bud Site 0.0007 0.0006 0.0005 0.0002 0.0002 0.0001 0.0016 0.0003 0.0017 0.0008 0.0025 0.0001 0.0029 0.0001 0.0002 0.0002 0.0055 0.0002
Cell Periphery 0.0002 0 0.0001 0 0 0 0.0002 0.0001 0.0001 0 0.0002 0 0.0003 0 0 0 0.0002 0
Cytoplasm 0.8688 0.972 0.9541 0.9241 0.9433 0.9646 0.7882 0.9809 0.9219 0.8213 0.6538 0.9555 0.7715 0.9839 0.9832 0.8544 0.8352 0.9479
Cytoplasmic Foci 0.0188 0.0066 0.0102 0.0122 0.0086 0.009 0.0389 0.0027 0.0159 0.0477 0.0455 0.0087 0.0503 0.006 0.0042 0.0504 0.0214 0.0082
Eisosomes 0.0002 0 0 0 0 0 0.0002 0 0 0.0001 0.0003 0 0.0003 0 0 0 0.0001 0.0001
Endoplasmic Reticulum 0.0052 0.0011 0.0022 0.0014 0.0017 0.0031 0.0098 0.0026 0.0021 0.0014 0.0028 0.0017 0.0134 0.001 0.0014 0.0026 0.0012 0.0026
Endosome 0.0109 0.0028 0.0053 0.0067 0.0045 0.0077 0.0458 0.0039 0.0155 0.0265 0.0735 0.0044 0.0416 0.001 0.0039 0.015 0.0269 0.0066
Golgi 0.0026 0.0002 0.0007 0.001 0.0002 0.0004 0.0101 0.0004 0.0019 0.0154 0.0338 0.0012 0.0138 0.0002 0.0002 0.0019 0.0502 0.0013
Lipid Particles 0.0027 0 0.0002 0.0005 0 0.0001 0.0042 0.0001 0.0049 0.0101 0.0152 0.0001 0.0118 0 0 0.0008 0.004 0.0007
Mitochondria 0.0036 0.0001 0.0002 0.0004 0.0001 0.0003 0.0156 0.0001 0.0012 0.0028 0.1089 0.0185 0.0087 0.0001 0.0001 0.0643 0.013 0.0007
None 0.0414 0.0132 0.0168 0.0256 0.0369 0.0061 0.0344 0.0065 0.0088 0.0036 0.0017 0.0021 0.0134 0.0056 0.0043 0.0023 0.0038 0.0046
Nuclear Periphery 0.0046 0.0004 0.0006 0.0005 0.0004 0.0023 0.0054 0.0006 0.0026 0.0034 0.002 0.0005 0.0162 0.0003 0.0004 0.0008 0.0007 0.0135
Nucleolus 0.0004 0 0 0 0 0 0.0008 0 0.0007 0.0001 0.0003 0 0.0002 0 0 0 0 0
Nucleus 0.0056 0.0014 0.0016 0.0018 0.0013 0.0021 0.0034 0.0009 0.0021 0.0016 0.0014 0.0017 0.0023 0.0006 0.0009 0.001 0.0016 0.0016
Peroxisomes 0.0105 0.0001 0.0005 0.0194 0.0001 0.0001 0.0102 0 0.0022 0.0192 0.0087 0.0009 0.0126 0.0005 0 0.002 0.0016 0.0005
Punctate Nuclear 0.0068 0.0003 0.0004 0.0003 0.0003 0.0004 0.0082 0.0001 0.0013 0.0037 0.0076 0.0001 0.0014 0.0001 0.0002 0.0004 0.0004 0.0004
Vacuole 0.0013 0.0005 0.0009 0.0013 0.0007 0.0008 0.0033 0.0003 0.0047 0.0009 0.007 0.0005 0.0025 0.0003 0.0003 0.0014 0.0011 0.0006
Vacuole Periphery 0.0004 0.0001 0.0002 0.0003 0.0002 0.0003 0.0015 0.0001 0.001 0.0004 0.0026 0.0002 0.002 0 0.0001 0.0008 0.0007 0.0005

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 17.0881 11.6387 9.7159 16.5219 24.7931 20.3317 17.6518 12.1619 16.4541 19.4244
Translational Efficiency 1.651 1.8363 1.5811 1.1697 0.9276 1.3257 1.0722 1.2857 1.2034 1.3356

Hit Data

Dataset Hit
Protein Concentration
Protein Localization
Gene Expression
Translational Efficiency
Standard name
Human Ortholog
Description Guanine nucleotide exchange factor (GEF) and ubiquitin receptor; involved in vesicle-mediated vacuolar transport, including Golgi-endosome trafficking and sorting through the multivesicular body (MVB); stimulates the intrinsic guanine nucleotide exchange activity of Rab family members (Vps21p/Ypt52p/Ypt53p); partially redundant with GEF MUK1; required for localization of the CORVET complex to endosomes; similar to mammalian ras inhibitors; contains a Ub-interacting CUE domain
Localization
Cell Percentages cytoplasm (95%)
Cell Cycle Regulation No
Subcompartmental Group cytoplasm-9

Vps9

Vps9


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 (Vps9-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