Standard name
Human Ortholog
Description Endosomal subunit of membrane-associated retromer complex; required for retrograde transport; receptor that recognizes retrieval signals on cargo proteins, forms subcomplex with Vps26p and Vps29p that selects cargo proteins for retrieval; interacts with Ypt7p; overexpression of wild-type human VPS35 or Parkinson's-associated vps35-D686N or vps35-P299S variants complements Ni2+ resistance and Cd2+ sensitivity of yeast vps35 null mutant
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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
Bud 0 0 0.08 0 0.05 0.06 0.06 0.07 0.11 – 0.07 0.08 0 0 0.05 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
Bud Site 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
Cytoplasm 0 0.09 0 0 0.06 0.05 0.07 0.09 0.12 – 0.12 0.09 0 0.06 0.08 0.06 0.08 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
Endosome 0.57 0.19 0.38 0.3 0.57 0.32 0.23 0.23 0.14 – 0.13 0.1 0.58 0.53 0.43 0.44 0.37 0.42 0.64 0.52 0.7 0.68 0.75 0.8
Golgi 0.14 0 0.05 0 0 0 0 0 0 – 0 0 0.1 0.08 0.06 0.18 0.19 0.22 0.11 0.06 0.05 0 0 0
Mitochondria 0.17 0.32 0.39 0.62 0.33 0.57 0.64 0.61 0.67 – 0.7 0.75 0.1 0.2 0.37 0.09 0.07 0.09 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
Nuclear Periphery 0 0.12 0.05 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0.05 0.07 0 0 0
Nucleolus 0.21 0.35 0.13 0.07 0 0.07 0 0.07 0 – 0 0.05 0.2 0.13 0.12 0.15 0.13 0.16 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
SpindlePole 0.13 0 0.12 0.05 0.06 0.06 0.09 0.11 0.07 – 0.07 0.06 0.05 0 0 0.1 0.11 0.12 0.05 0.05 0 0 0 0
Vac/Vac Membrane 0.21 0.37 0.17 0.2 0.17 0.09 0.08 0.09 0.07 – 0 0.07 0.34 0.28 0.21 0.41 0.45 0.35 0.09 0.23 0.1 0.23 0.13 0.06
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 4 0 1 2 1 4 5 7 4 – 4 2 2 5 4 19 8 18 2 1 1 0 3 6
Bud 2 0 16 7 22 23 29 40 37 – 24 41 4 2 19 5 0 1 1 0 1 0 0 4
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
Bud Site 1 0 0 1 0 0 1 1 0 – 3 0 0 0 0 0 0 0 – – – – – –
Cell Periphery 0 0 0 0 0 1 0 5 4 – 6 4 0 0 0 0 0 0 0 0 0 0 0 0
Cytoplasm 4 5 5 9 29 19 35 52 43 – 40 45 9 20 30 34 29 26 0 0 0 0 0 0
Endoplasmic Reticulum 1 0 7 2 11 11 16 4 6 – 5 14 1 4 3 16 14 11 0 0 0 0 1 1
Endosome 86 11 79 79 255 116 108 132 47 – 42 50 121 183 160 253 134 184 113 40 161 122 213 270
Golgi 21 0 10 8 15 11 7 5 2 – 2 3 22 28 21 104 67 95 19 4 11 2 6 14
Mitochondria 26 18 82 165 146 207 304 354 230 – 228 378 20 68 138 50 26 40 3 0 7 2 3 4
Nucleus 2 0 1 2 0 2 3 2 0 – 1 1 0 0 2 3 0 5 1 1 0 0 2 0
Nuclear Periphery 2 7 10 8 0 0 6 0 1 – 0 4 5 5 1 6 10 3 5 4 16 2 5 7
Nucleolus 32 20 27 19 19 25 19 39 11 – 11 25 42 44 43 84 47 70 1 1 0 0 1 0
Peroxisomes 1 0 3 3 7 10 4 16 12 – 7 7 5 1 0 3 3 2 3 0 1 0 3 2
SpindlePole 20 1 25 13 29 22 44 61 25 – 24 31 11 12 9 58 41 54 9 3 5 2 5 2
Vac/Vac Membrane 32 21 36 52 76 34 40 50 24 – 11 33 71 96 78 237 164 153 15 17 22 41 36 19
Unique Cell Count 150 57 210 266 447 361 476 580 345 326 506 210 346 369 575 361 434 178 78 232 180 286 339
Labelled Cell Count 234 83 302 370 610 485 621 768 446 408 638 313 468 508 872 543 662 178 78 232 180 286 339


Endosome, 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) 11.6 8.9 7.5 7.3 7.4 6.9 6.1 6.2 5.9 – 5.9 5.5 10.9 11.0 9.5 14.0 15.8 15.8 10.1 10.6 11.8
Std Deviation (1e-4) 2.3 1.7 1.2 1.6 1.2 1.2 1.0 1.1 1.1 – 1.1 1.0 2.0 2.4 2.1 3.1 3.9 3.4 2.0 2.5 2.4
Intensity Change (Log2) – – – -0.04 -0.01 -0.11 -0.29 -0.26 -0.35 – -0.33 -0.44 0.55 0.56 0.35 0.91 1.08 1.08 0.44 0.5 0.66


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 2.2 0 2.6
Bud -2.5 -1.4 -0.6 -0.7 -0.3 1.2 – -0.1 0.2 -2.7 -4.5 -1.2 -5.2 -5.3 -5.5
Bud Neck 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
Cell Periphery 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0
Cytoplasm 0.6 2.2 1.7 2.6 3.2 4.1 – 4.0 3.1 1.1 1.9 2.8 2.0 2.8 2.0
Endoplasmic Reticulum 0 -0.6 -0.2 0 0 0 – 0 -0.4 0 0 0 -0.4 0.3 -0.6
Endosome -1.8 4.6 -1.3 -4.0 -4.2 -6.5 – -6.7 -8.8 4.1 3.5 1.3 1.6 -0.1 1.2
Golgi -1.0 -0.9 -1.0 -2.6 0 0 – 0 0 2.2 1.5 0.5 4.7 4.7 5.5
Mitochondria 5.0 -1.6 4.2 6.0 5.5 6.4 – 7.1 9.1 -7.1 -5.0 -0.4 -10.1 -9.4 -9.1
Nucleus 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0
Nuclear Periphery -1.0 0 0 0 0 0 – 0 0 -1.3 -2.3 0 0 -1.2 0
Nucleolus -2.1 -4.0 -2.4 -4.3 -2.8 -4.4 – -4.2 -3.7 2.0 0 -0.4 0.6 0.1 1.1
Peroxisomes 0 0 0 0 1.1 1.4 – 0 0 0 0 0 0 0 0
SpindlePole -2.8 -2.4 -2.4 -1.1 -0.6 -1.9 – -1.8 -2.6 -2.4 -3.9 -4.7 -0.7 -0.2 0.2
Vacuole 0.7 0 -2.7 -3.4 -3.4 -3.7 – -5.5 -4.4 3.9 2.8 1.2 6.3 6.8 4.7

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 6.9456 9.3096 8.1782 8.6014 7.384 8.4426 6.8827 10.1843 9.9806 9.5608 8.2281 9.1423 4.9651 7.5263 6.2757 5.6885 6.3686 6.3252
Actin 0.0001 0.0001 0.0004 0 0.0001 0.0001 0.027 0.0014 0.0308 0.0001 0.0413 0.0021 0.009 0.0001 0.0229 0 0.0001 0.0001
Bud 0.0001 0.0002 0.0001 0.0003 0.0006 0.0001 0.0007 0.0004 0.0017 0 0.0007 0.0005 0.0007 0.0003 0.001 0 0.0001 0.0001
Bud Neck 0.0002 0.0002 0.0003 0.0001 0.0003 0.001 0.0021 0.0007 0.0009 0.0001 0.0005 0.0008 0.0053 0.0001 0.0023 0.0001 0.0001 0.0002
Bud Periphery 0.0002 0.0002 0.0001 0.0005 0.0011 0.0001 0.0011 0.0003 0.0014 0 0.0006 0.0011 0.0012 0.0002 0.0017 0 0.0001 0.0001
Bud Site 0.0003 0.0007 0.0007 0.0001 0.0009 0.0003 0.0038 0.002 0.0081 0 0.001 0.0005 0.0126 0.0004 0.0077 0 0.0001 0.0001
Cell Periphery 0.0001 0.0002 0.0002 0.0002 0.0002 0.0001 0.0003 0.0004 0.0003 0 0.0001 0.0002 0.0004 0.0001 0.0006 0 0 0.0001
Cytoplasm 0.0026 0.0152 0.0039 0.0026 0.0031 0.0048 0.0088 0.0222 0.0048 0.0015 0.0096 0.0054 0.0051 0.0063 0.0072 0.0011 0.0016 0.0039
Cytoplasmic Foci 0.0377 0.0448 0.0541 0.0267 0.0331 0.0372 0.0524 0.0475 0.0465 0.04 0.0251 0.031 0.0695 0.0675 0.0873 0.0381 0.0416 0.0458
Eisosomes 0 0 0 0 0 0 0.0006 0 0.0002 0 0.0006 0 0.0002 0 0.0013 0 0 0
Endoplasmic Reticulum 0.0018 0.0024 0.0013 0.0009 0.001 0.0019 0.0053 0.0024 0.0031 0.001 0.0024 0.0022 0.002 0.0014 0.0029 0.0006 0.0006 0.0013
Endosome 0.7054 0.6186 0.6436 0.6002 0.6989 0.6483 0.5128 0.5432 0.56 0.6434 0.4537 0.5059 0.6735 0.6173 0.5464 0.7472 0.6796 0.6189
Golgi 0.0625 0.0476 0.102 0.0942 0.0712 0.0899 0.051 0.0549 0.0753 0.0859 0.0593 0.0817 0.0414 0.0584 0.1098 0.0446 0.0944 0.0925
Lipid Particles 0.0357 0.0394 0.0551 0.0033 0.0075 0.0385 0.0414 0.0381 0.0341 0.0087 0.0714 0.0399 0.0353 0.0256 0.0538 0.011 0.0275 0.0332
Mitochondria 0.0037 0.0016 0.004 0.0007 0.0021 0.0109 0.0078 0.003 0.016 0.0006 0.0073 0.0195 0.0041 0.0028 0.0065 0.0008 0.0416 0.008
None 0.0001 0.0005 0.0001 0 0.0001 0.0001 0.0091 0.0002 0.0008 0 0.0027 0.0005 0.0006 0.0002 0.0033 0 0 0.0001
Nuclear Periphery 0.0038 0.0039 0.0049 0.0021 0.002 0.0062 0.0176 0.0088 0.009 0.0188 0.0222 0.0262 0.0045 0.0024 0.0169 0.0019 0.001 0.0031
Nucleolus 0.0001 0.0022 0.0007 0.0001 0.0006 0.0002 0.0011 0.0122 0.0008 0.0001 0.0008 0.0011 0.0007 0.0009 0.0015 0 0.0002 0.0003
Nucleus 0.0008 0.0053 0.0005 0.0005 0.0018 0.0005 0.0261 0.0028 0.0018 0.0003 0.0183 0.0019 0.001 0.0007 0.0016 0.0001 0.0001 0.0004
Peroxisomes 0.0014 0.0006 0.0029 0.0004 0.0006 0.0016 0.0177 0.0018 0.0116 0.0003 0.0159 0.0041 0.0104 0.0005 0.0264 0.0002 0.0117 0.0046
Punctate Nuclear 0.0001 0.0006 0.0004 0 0.0001 0.0002 0.0116 0.0018 0.0017 0.0001 0.005 0.0173 0.0039 0.0006 0.002 0.0001 0.0001 0.0004
Vacuole 0.0733 0.14 0.0734 0.1311 0.0933 0.0714 0.1149 0.1709 0.1198 0.1079 0.1133 0.1106 0.0658 0.1361 0.0571 0.0681 0.0292 0.0956
Vacuole Periphery 0.0698 0.0757 0.0513 0.136 0.0815 0.0866 0.0869 0.0852 0.0711 0.091 0.1481 0.1475 0.0529 0.0781 0.04 0.0857 0.0704 0.0913

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 35.8071 22.2674 23.7523 44.2331 30.5298 28.7854 34.8272 41.9072 38.0492 43.8055
Translational Efficiency 0.5816 0.8426 0.8934 0.5035 0.6392 0.7502 0.7122 0.5054 0.5717 0.5356

Hit Data

Dataset Hit
Protein Concentration ✔
Protein Localization ✘
Gene Expression ✘
Translational Efficiency ✘
Standard name
Human Ortholog
Description Endosomal subunit of membrane-associated retromer complex; required for retrograde transport; receptor that recognizes retrieval signals on cargo proteins, forms subcomplex with Vps26p and Vps29p that selects cargo proteins for retrieval; interacts with Ypt7p; overexpression of wild-type human VPS35 or Parkinson's-associated vps35-D686N or vps35-P299S variants complements Ni2+ resistance and Cd2+ sensitivity of yeast vps35 null mutant
Localization
Cell Percentages endosome (28%), vacuolar membrane (9%), mixed (43%)
Cell Cycle Regulation No
Subcompartmental Group N/A

Vps35

Vps35


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 (Vps35-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