Standard name
Human Ortholog
Description Component of CORVET membrane tethering complex; cytoplasmic protein required for the sorting and processing of soluble vacuolar proteins, acidification of the vacuolar lumen, and assembly of the vacuolar H+-ATPase

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 0.1 0 0.1 0.07 0.1 0.12 0.09 0.14 0.12 0.16 0 0 0 0 0 0 0 0 0 0 0 0
Bud Neck 0 0 0.05 0 0.05 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 0.05 0 0.07 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 0
Cytoplasm 0 0 0.05 0.05 0 0.05 0 0.06 0.05 0.05 0 0 0 0.06 0.07 0.05 0.07 0.06 0 0 0 0 0 0
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Endosome 0.5 0.52 0.06 0 0.1 0 0 0 0 0 0 0 0.67 0.69 0.52 0.53 0.54 0.56 0.7 0.76 0.72 0.79 0.72 0.85
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 0.18 0.26 0.45 0.64 0.41 0.61 0.56 0.5 0.64 0.63 0.66 0.61 0.12 0.07 0.25 0.09 0.11 0.14 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 0.05 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Nucleolus 0.14 0.14 0.05 0 0 0.05 0 0 0.05 0 0 0 0.11 0.12 0.1 0.05 0 0.1 0 0 0 0 0 0
Peroxisomes 0.18 0.17 0.07 0.07 0.13 0.09 0.13 0.11 0.12 0.13 0.14 0.17 0.27 0.25 0.13 0.08 0.05 0.08 0.13 0.05 0.1 0 0.07 0
SpindlePole 0.43 0.31 0.5 0.4 0.47 0.4 0.45 0.51 0.36 0.37 0.34 0.44 0.36 0.36 0.28 0.51 0.52 0.46 0.1 0.09 0.09 0.09 0.08 0
Vac/Vac Membrane 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.05 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 2 1 2 1 0 3 2 1 0 1 0 0 0 0 0 5 2 6 0 3 2 1 0 1
Bud 4 9 39 5 35 28 48 59 33 55 42 64 3 3 6 10 3 11 0 2 0 0 1 0
Bud Neck 2 1 18 0 17 10 4 9 3 8 4 7 0 2 0 0 2 0 0 3 1 0 0 0
Bud Site 2 1 8 1 1 3 9 12 10 20 12 28 0 0 0 0 0 0
Cell Periphery 0 1 0 0 0 0 0 0 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Cytoplasm 6 15 18 13 14 18 17 30 20 21 13 18 6 9 12 25 17 15 2 3 1 0 1 0
Endoplasmic Reticulum 0 1 0 3 1 0 2 1 0 1 2 1 1 0 0 12 5 4 0 0 2 0 1 1
Endosome 119 289 22 9 35 13 19 18 15 4 6 6 90 111 85 245 140 151 192 460 331 87 97 150
Golgi 0 1 1 0 0 0 0 0 0 0 1 0 0 2 0 3 10 3 6 8 7 0 4 4
Mitochondria 43 144 168 172 146 230 262 254 235 240 237 251 16 11 42 41 28 38 3 15 10 2 3 5
Nucleus 0 6 1 2 1 2 2 4 0 3 2 4 0 0 0 4 0 1 0 0 0 0 0 0
Nuclear Periphery 4 28 2 2 3 3 3 0 3 3 3 2 1 0 3 13 4 9 1 2 1 0 0 0
Nucleolus 34 78 19 11 10 18 14 19 18 13 10 13 15 20 16 24 11 27 0 7 3 0 0 0
Peroxisomes 43 97 27 18 45 34 59 57 43 48 51 70 36 40 22 38 12 22 34 28 47 4 9 6
SpindlePole 102 170 187 107 168 150 213 260 130 141 123 179 48 57 47 234 136 123 28 57 42 9 10 3
Vac/Vac Membrane 9 18 2 1 1 2 1 1 2 0 0 2 5 3 3 16 9 14 0 3 3 0 1 0
Unique Cell Count 238 555 374 268 359 374 469 512 365 383 357 410 135 160 165 460 261 269 275 604 462 111 134 178
Labelled Cell Count 370 860 514 345 477 514 655 725 514 558 506 645 221 258 236 670 379 424 275 604 462 111 134 178


Punctate Nuclear

(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) 6.1 5.4 3.6 3.4 3.6 3.4 3.3 3.5 3.1 3.1 3.0 2.9 5.5 5.5 4.9 7.2 7.6 7.4 5.1 5.8 6.1
Std Deviation (1e-4) 0.7 0.7 0.8 0.9 0.7 0.6 0.9 1.2 0.8 1.2 0.8 1.0 1.3 1.1 0.9 1.2 1.5 1.4 0.7 1.5 1.1
Intensity Change (Log2) -0.08 -0.02 -0.08 -0.13 -0.06 -0.25 -0.22 -0.25 -0.3 0.6 0.61 0.44 0.98 1.06 1.02 0.49 0.68 0.76


Localization RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3
Actin
Bud 0 0 0 0 0 0 0 0 -3.0 -3.4 -2.6 -5.0 -4.6 -3.0
Bud Neck 0 0 0 0 0 0 0 0 0 -2.0 -2.9 -4.8 -2.9 -3.6
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
Cyto
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 0 0 3.1 0 0
Endosome 0 0 0 0 0 0 0 0 14.6 15.5 12.2 14.6 13.6 14.2
Golgi 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Mitochondria 0 0 0 0 0 0 0 0 -6.9 -8.5 -4.3 -11.9 -9.2 -8.3
Nuclear Periphery 0 0 0 0 0 0 0 0 0 0 0 2.5 0 0
Nuc
Nucleolus 0 0 0 0 0 0 0 0 2.4 3.0 2.0 0.1 -0.5 2.4
Peroxisomes 0 0 0 0 0 0 0 0 5.9 5.7 2.3 0.6 -1.4 0.5
SpindlePole 0 0 0 0 0 0 0 0 -2.9 -3.1 -4.6 0.2 0.5 -1.1
Vac
Cortical Patches 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Cytoplasm 0 -0.6 -0.9 0.7 0.4 0.4 -0.8 -0.3 -0.2 0.4 1.1 0.4 0.9 0.4
Nucleus 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 2.9 0 3.7

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 1.5737 2.208 1.7685 1.5807 1.9768 1.7287 4.3817 4.4063 4.6568 3.9646 4.1752 4.5738 4.176 4.6187 4.4631 4.5856 4.2297 4.9115
Actin 0.009 0.0018 0.0099 0 0.0188 0.0005 0.0113 0.0009 0.0064 0.0001 0.0003 0.0007 0.0097 0.0002 0.0009 0.0008 0 0.0036
Bud 0.0001 0.0002 0.0002 0 0.0005 0.0012 0.0002 0.0005 0.0005 0 0.0001 0.0001 0.0001 0 0.0001 0.0001 0 0
Bud Neck 0.0011 0.0004 0.0005 0.0001 0.0033 0.001 0.0006 0.0026 0.0011 0.0001 0.0004 0.0004 0.0004 0.0003 0.0003 0.0007 0.0001 0.0001
Bud Periphery 0.0001 0.0002 0.0005 0 0.0006 0.0007 0.0002 0.0004 0.0008 0 0.0001 0.0001 0.0001 0 0.0001 0.0001 0 0
Bud Site 0.001 0.0024 0.0006 0.0001 0.0026 0.0004 0.0033 0.0042 0.0147 0 0.0005 0.0002 0.0006 0.0002 0.0007 0.0006 0 0
Cell Periphery 0.0001 0.0001 0.0001 0 0.0002 0.0003 0.0001 0.0003 0.0004 0 0.0001 0 0 0 0 0 0 0
Cytoplasm 0.0029 0.001 0.0013 0.0004 0.0026 0.002 0.0135 0.007 0.0113 0.0004 0.0015 0.0031 0.0011 0.0004 0.0005 0.0006 0 0.0002
Cytoplasmic Foci 0.1964 0.2672 0.2245 0.181 0.2097 0.1868 0.1655 0.2112 0.1558 0.1855 0.1436 0.1477 0.2021 0.2049 0.1789 0.1791 0.2389 0.1566
Eisosomes 0.0001 0.0001 0.0004 0 0.0003 0 0.0001 0 0.0001 0 0 0 0.0001 0 0.0001 0 0 0
Endoplasmic Reticulum 0.0015 0.0001 0.0006 0.0001 0.0019 0.0001 0.0016 0.0004 0.0017 0.0001 0.0006 0.0006 0.0004 0 0.0001 0.0001 0 0
Endosome 0.2234 0.186 0.1892 0.2755 0.2022 0.1643 0.2724 0.31 0.2651 0.3269 0.3608 0.2119 0.1409 0.1258 0.1396 0.1424 0.0463 0.0857
Golgi 0.0446 0.048 0.0637 0.0578 0.0637 0.0453 0.0496 0.0621 0.0665 0.0828 0.07 0.0603 0.0484 0.0485 0.0546 0.0856 0.0175 0.0375
Lipid Particles 0.3477 0.2664 0.2743 0.3112 0.2716 0.3702 0.2443 0.1744 0.1837 0.2058 0.1761 0.3172 0.2813 0.2931 0.2541 0.2248 0.3652 0.4297
Mitochondria 0.0062 0.0043 0.0287 0.0012 0.025 0.0076 0.0037 0.0097 0.0124 0.0012 0.0089 0.0065 0.0039 0.002 0.0177 0.0151 0.0001 0.0035
None 0.008 0.0002 0.0006 0.0001 0.0006 0.0018 0.0056 0.0039 0.0102 0.0001 0.0002 0.0019 0.001 0.0259 0.0128 0.0001 0 0
Nuclear Periphery 0.0069 0.0002 0.0019 0.0001 0.0137 0.0006 0.0055 0.0004 0.0005 0.0001 0.0003 0.0005 0.0006 0 0.0001 0.0001 0 0.0002
Nucleolus 0.002 0.0009 0.0002 0.0001 0.0008 0.0005 0.0011 0.0018 0.0007 0.0001 0.0003 0.0003 0.0002 0.0004 0.0007 0.0001 0.0001 0.0001
Nucleus 0.0023 0.0002 0.0005 0 0.0022 0.0003 0.0117 0.0009 0.0005 0 0.0002 0.0002 0.0002 0.0001 0.0005 0.0001 0 0
Peroxisomes 0.1323 0.201 0.1885 0.1695 0.1669 0.2097 0.1925 0.1848 0.2565 0.1939 0.2236 0.2421 0.3026 0.2954 0.3348 0.3476 0.3295 0.2758
Punctate Nuclear 0.0084 0.0089 0.0113 0.0007 0.0026 0.0039 0.0118 0.005 0.0025 0.0008 0.0008 0.002 0.0045 0.0011 0.002 0.0008 0.0019 0.0062
Vacuole 0.0037 0.0095 0.0014 0.0015 0.0062 0.0017 0.0044 0.0168 0.0064 0.0015 0.0085 0.003 0.0011 0.001 0.0009 0.0007 0.0001 0.0003
Vacuole Periphery 0.002 0.001 0.0009 0.0008 0.004 0.0009 0.0013 0.0028 0.0022 0.0007 0.0029 0.0014 0.0007 0.0003 0.0005 0.0005 0.0001 0.0002

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 6.7236 5.1983 6.5093 8.7017 6.1258 5.4486 7.9661 10.7532 9.3165 10.1056
Translational Efficiency 0.856 0.8379 0.7494 0.7717 0.848 1.1313 0.6464 0.5551 0.7059 0.6931

Hit Data

Dataset Hit
Protein Concentration
Protein Localization
Gene Expression
Translational Efficiency
Standard name
Human Ortholog
Description Component of CORVET membrane tethering complex; cytoplasmic protein required for the sorting and processing of soluble vacuolar proteins, acidification of the vacuolar lumen, and assembly of the vacuolar H+-ATPase
Localization
Cell Percentages endosome (35%)
Cell Cycle Regulation No
Subcompartmental Group N/A

Vps3

Vps3


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 (Vps3-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