Standard name
Human Ortholog
Description Subunit of the HOPS endocytic tethering complex; vacuole membrane protein that functions as a Rab GTPase effector, interacting specifically with the GTP-bound conformation of Ypt7p, facilitating tethering, docking and promoting membrane fusion events at the late endosome and vacuole; required for both membrane and protein trafficking; Yck3p-mediated phosphorylation regulates the organization of vacuolar fusion sites
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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 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 0.07 0.08 0.07 0.08 0.06 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 0 0 0 0 0 0
Cytoplasm 0.06 0.05 0.06 0.1 0.1 0.14 0.19 0.21 0.17 0.22 0.23 0.19 0.1 0.16 0.11 0.29 0.15 0.08 0 0 0 0 0 0
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 0 0 0 0 0.08 0 0.06 0.05 0 0 0 0 0 0 0
Endosome 0.36 0 0.42 0.47 0.57 0.23 0.38 0.24 0.15 0.09 0.08 0.15 0.22 0.2 0.3 0.32 0.32 0.48 0.33 0.35 0.46 0.46 0.48 0.54
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 0.1 0.54 0.22 0.36 0.23 0.55 0.33 0.5 0.61 0.65 0.68 0.59 0 0 0 0.08 0.13 0 0 0 0 0 0 0
Nucleus 0 0.07 0 0 0 0 0 0 0 0 0 0 0.1 0 0 0 0.06 0 0 0 0 0 0 0
Nuclear Periphery 0 0 0 0 0 0 0 0 0 0 0 0 0.06 0 0 0 0 0 0.07 0 0.1 0.05 0 0
Nucleolus 0.06 0 0.08 0.05 0 0.08 0.06 0.07 0.07 0 0.07 0.08 0.08 0.05 0 0 0.07 0.16 0 0 0 0 0 0
Peroxisomes 0 0 0 0 0 0 0.06 0.07 0.06 0.07 0 0.06 0 0 0 0 0 0 0 0 0 0 0 0
SpindlePole 0 0 0 0 0.1 0.14 0.12 0.16 0.17 0.18 0.17 0.19 0.08 0.08 0.11 0 0.09 0.16 0 0 0 0 0 0
Vac/Vac Membrane 0.71 0.62 0.55 0.3 0.29 0.18 0.18 0.1 0.09 0.09 0.09 0.08 0.64 0.7 0.61 0.52 0.54 0.52 0.51 0.53 0.37 0.38 0.38 0.29
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 1 0 0 0 0 0 0 0 0 0 1 0 1 2 1 0 1 1 0 0 0 0 0
Bud 2 4 0 2 8 17 16 39 35 34 36 36 0 0 0 1 0 0 0 1 1 0 0 4
Bud Neck 0 0 0 0 0 0 1 0 0 0 1 3 0 0 0 0 0 0 0 0 0 0 0 0
Bud Site 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 0 – – – – – –
Cell Periphery 0 0 0 1 0 0 0 0 0 3 0 1 0 0 1 1 0 0 0 0 0 0 0 0
Cytoplasm 23 9 18 21 38 59 98 119 71 111 104 120 5 10 20 36 20 2 1 2 2 1 1 3
Endoplasmic Reticulum 1 3 2 4 2 4 3 1 1 3 2 0 2 5 6 8 7 1 0 1 2 1 0 5
Endosome 132 4 127 94 213 97 198 134 63 48 38 93 11 13 57 40 44 12 130 71 147 84 107 143
Golgi 0 0 1 5 0 0 0 0 0 0 0 0 0 0 1 0 2 0 2 0 3 2 0 1
Mitochondria 37 100 68 73 86 229 169 285 261 337 310 365 1 0 0 10 18 1 15 4 6 5 9 7
Nucleus 10 12 3 0 1 3 7 4 1 1 1 3 5 0 8 3 8 0 2 2 0 3 1 1
Nuclear Periphery 4 5 13 5 0 5 7 1 2 2 3 1 3 0 1 3 4 0 28 6 33 8 9 11
Nucleolus 21 7 24 10 10 34 32 37 31 21 31 47 4 3 7 1 9 4 2 0 0 3 0 0
Peroxisomes 2 0 1 1 10 17 31 39 24 36 17 36 0 0 0 0 0 0 0 0 0 0 1 0
SpindlePole 16 4 7 9 36 58 63 91 73 91 78 121 4 5 21 5 12 4 4 1 3 3 4 3
Vac/Vac Membrane 256 114 168 61 108 74 94 59 39 48 40 47 32 45 115 66 73 13 199 108 119 70 84 76
Unique Cell Count 362 184 305 202 372 418 516 566 428 515 457 621 50 64 190 126 136 25 394 206 323 185 223 265
Labelled Cell Count 504 263 432 286 512 597 719 809 601 738 661 874 67 82 239 175 197 38 394 206 323 185 223 265


Vacuole, Vacuole Periphery

(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) 6.4 4.9 6.1 6.1 5.6 4.8 5.0 4.7 4.3 4.0 4.0 4.3 6.1 6.2 6.5 5.5 6.4 7.6 7.4 7.4 7.6
Std Deviation (1e-4) 1.6 0.6 1.7 1.6 1.5 1.4 1.6 1.2 0.9 0.9 0.7 1.0 0.6 0.6 0.7 1.2 1.2 1.6 1.5 1.4 1.3
Intensity Change (Log2) – – – -0.02 -0.13 -0.36 -0.29 -0.39 -0.51 -0.6 -0.6 -0.53 -0.02 0.02 0.09 -0.15 0.06 0.3 0.26 0.26 0.31


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 3.1 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 1.9 2.0 3.5 5.2 5.8 4.4 5.9 6.2 5.4 0 0 1.9 6.5 3.0 0
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Endosome 1.1 4.0 0 -0.9 0 0 0 0 0 -2.6 -3.2 -2.6 -1.9 -1.8 0.6
Golgi 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Mitochondria 3.4 0.3 0 3.2 0 0 0 0 0 -3.4 -4.2 -7.0 -3.5 -2.2 -2.2
Nucleus 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Nuclear Periphery -1.1 -4.0 0 -2.6 0 0 0 0 0 0 0 -2.4 0 -0.7 0
Nucleolus -1.3 -3.1 0 -0.9 0 0 0 0 0 0 0 -1.9 -2.9 -0.5 0
Peroxisomes 0 0 0 4.1 0 0 0 0 0 0 0 0 0 0 0
SpindlePole 1.4 3.9 0 4.9 0 0 0 0 0 0 0 4.1 0 3.1 0
Vacuole -5.5 -6.9 -10.5 -10.9 -14.3 -13.6 -14.4 -14.1 -16.1 1.2 2.2 1.2 -0.5 -0.3 -0.3

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 1.3991 1.7886 1.8048 1.6988 1.1971 1.7634 2.1573 3.0685 2.364 1.9166 2.1424 2.3611 2.0171 2.3442 2.1395 1.359 2.1252 1.9609
Actin 0.0021 0 0 0.0001 0 0.0004 0.004 0 0.0077 0.0109 0.0031 0.0001 0.0046 0.0001 0.0057 0 0 0.0031
Bud 0.0001 0.0001 0.0002 0.0001 0.0003 0.0005 0.0004 0.0003 0.0006 0.0002 0.001 0.0002 0.0004 0.0006 0.0006 0.0001 0.0001 0.0002
Bud Neck 0.0004 0.0003 0.0003 0.0002 0.0004 0.0005 0.0008 0.0009 0.0005 0.0004 0.0052 0.0006 0.0003 0.0005 0.0013 0.0004 0.0001 0.0006
Bud Periphery 0.0001 0.0001 0.0002 0.0001 0.0002 0.0003 0.0005 0.0004 0.0006 0.0003 0.0011 0.0003 0.0012 0.0003 0.0008 0.0001 0 0.0004
Bud Site 0.0004 0.0003 0.0009 0.0002 0.0005 0.0002 0.0025 0.003 0.0013 0.0004 0.0198 0.0004 0.0007 0.0082 0.0015 0.0001 0.0001 0.0004
Cell Periphery 0.0002 0.0001 0.0001 0.0001 0.0001 0.0001 0.0003 0.0015 0.0002 0.0001 0.0004 0.0002 0.0004 0.0004 0.0003 0.0001 0 0.0002
Cytoplasm 0.0143 0.0182 0.0278 0.0039 0.0116 0.0113 0.0302 0.0372 0.0124 0.022 0.0107 0.027 0.0083 0.1442 0.0642 0.0025 0.0128 0.0325
Cytoplasmic Foci 0.0547 0.0372 0.052 0.0312 0.0301 0.0528 0.0593 0.0419 0.0894 0.0383 0.0607 0.0565 0.041 0.0558 0.0747 0.0305 0.0283 0.0419
Eisosomes 0 0 0 0 0 0 0.0001 0.0001 0.0001 0.0001 0.0001 0 0.0001 0 0.0001 0 0 0
Endoplasmic Reticulum 0.0041 0.0028 0.0034 0.0007 0.0011 0.0023 0.0061 0.0037 0.0028 0.0011 0.0037 0.0024 0.0161 0.0056 0.0042 0.0006 0.0006 0.004
Endosome 0.6353 0.6716 0.6478 0.7217 0.7446 0.6254 0.4992 0.4279 0.5538 0.5737 0.5807 0.608 0.4575 0.5064 0.4869 0.5972 0.6587 0.5803
Golgi 0.0146 0.0132 0.0211 0.0283 0.0195 0.0216 0.0318 0.0088 0.0384 0.0312 0.0228 0.0284 0.0301 0.0119 0.0229 0.0172 0.0106 0.0262
Lipid Particles 0.0231 0.0074 0.0114 0.0121 0.0024 0.0151 0.053 0.016 0.0432 0.0592 0.0368 0.0376 0.0731 0.0131 0.0333 0.0312 0.0025 0.0129
Mitochondria 0.002 0.0027 0.0128 0.0243 0.0024 0.0095 0.0163 0.0077 0.0334 0.0087 0.002 0.0164 0.0725 0.0029 0.0146 0.0037 0.001 0.0141
None 0.0116 0.0016 0.0051 0.0003 0.0003 0.0088 0.0518 0.0886 0.0261 0.0048 0.0047 0.001 0.0234 0.024 0.0421 0.0001 0.0001 0.0196
Nuclear Periphery 0.0103 0.0038 0.0074 0.0012 0.0015 0.0051 0.0346 0.0064 0.0077 0.0022 0.0044 0.0037 0.0407 0.0051 0.0071 0.0016 0.0018 0.0055
Nucleolus 0.0034 0.0004 0.0006 0.0002 0.0003 0.0005 0.0013 0.005 0.0008 0.001 0.0016 0.0016 0.0008 0.0006 0.0007 0.0005 0.0002 0.0004
Nucleus 0.0027 0.0007 0.0021 0.0003 0.0008 0.0011 0.0108 0.0054 0.001 0.0029 0.0024 0.0015 0.0024 0.0024 0.002 0.0003 0.0004 0.0021
Peroxisomes 0.0036 0.0016 0.0013 0.0027 0.0008 0.0052 0.0271 0.0014 0.0227 0.009 0.0057 0.0036 0.0074 0.0009 0.0163 0.0071 0.0005 0.0024
Punctate Nuclear 0.0033 0.0001 0.0003 0.0001 0.0001 0.0035 0.0053 0.0005 0.0024 0.0009 0.01 0.0007 0.0023 0.0005 0.0017 0.0002 0.0001 0.0011
Vacuole 0.1619 0.1572 0.1386 0.1164 0.1298 0.1413 0.1189 0.2833 0.1131 0.1492 0.159 0.1395 0.1239 0.1736 0.1684 0.1757 0.1864 0.1718
Vacuole Periphery 0.0519 0.0807 0.0667 0.0558 0.0533 0.0945 0.0456 0.0599 0.0416 0.0834 0.0643 0.0703 0.0931 0.0427 0.0508 0.1308 0.0957 0.0803

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 8.1487 5.96 11.3021 11.73 10.0849 11.1057 10.2109 14.5742 15.1563 13.5481
Translational Efficiency 1.2202 1.2693 0.7564 0.871 0.8894 0.919 1.068 0.5721 0.6463 0.8294

Hit Data

Dataset Hit
Protein Concentration ✘
Protein Localization ✘
Gene Expression ✔
Translational Efficiency ✘
Standard name
Human Ortholog
Description Subunit of the HOPS endocytic tethering complex; vacuole membrane protein that functions as a Rab GTPase effector, interacting specifically with the GTP-bound conformation of Ypt7p, facilitating tethering, docking and promoting membrane fusion events at the late endosome and vacuole; required for both membrane and protein trafficking; Yck3p-mediated phosphorylation regulates the organization of vacuolar fusion sites
Localization
Cell Percentages vacuolar membrane (36%)
Cell Cycle Regulation No
Subcompartmental Group vac memb-1

Vps41

Vps41


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 (Vps41-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