Standard name
Human Ortholog
Description Ubiquitin-protein ligase involved in ER-associated degradation (ERAD) of misfolded proteins; upon autoubiquitination triggers retrotranslocation of misfolded proteins to cytosol for degradation; genetically linked to the unfolded protein response (UPR); regulated through association with Hrd3p; contains an H2 ring finger; likely plays a general role in targeting proteins that persistently associate with and potentially obstruct the ER-localized translocon
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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 0.05 0 0 0.07 0 0 0 0 0 0 0 0.05 0.07 0 0 – 0.06 0.19 0.12 0.08 0.21 0.19 0.18 0.16
Bud 0 0 0.05 0.05 0 0 0 0 0.05 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 – 0.06 0 0 0 0.05 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 0.06 0.09 0.06 0.08 0 0 0.07 0.05 0.07 0.05 0.05 0.1 – 0.11 0.22 0.05 0.06 0.06 0.11 0.14 0.13
Cytoplasm 0.79 0.73 0.77 0.72 0.61 0.51 0.4 0.37 0.3 0.32 0.31 0.28 0.81 0.86 0.84 – 0.75 0.52 0.4 0.39 0.25 0.18 0.22 0.26
Endoplasmic Reticulum 0.13 0.17 0 0.11 0.07 0.11 0.12 0.09 0.11 0.12 0.19 0.19 0.12 0.09 0.07 – 0 0.09 0.15 0.1 0.13 0.18 0.15 0.15
Endosome 0 0 0 0 0.12 0.07 0.05 0.07 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
Mitochondria 0 0.13 0.12 0.18 0.18 0.43 0.46 0.56 0.63 0.64 0.58 0.54 0 0 0 – 0.11 0.05 0.16 0.18 0.14 0.2 0.17 0.17
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 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
Peroxisomes 0 0 0 0 0.08 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
Vac/Vac Membrane 0 0 0 0 0.06 0 0.05 0 0.07 0.05 0.05 0.06 0 0 0 – 0 0 0 0.05 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 12 1 6 12 3 4 4 4 8 6 19 23 60 36 24 – 6 18 32 5 58 62 104 96
Bud 2 2 11 8 6 12 14 19 23 20 19 20 11 9 5 – 3 4 4 0 10 8 13 10
Bud Neck 5 0 0 0 0 0 0 1 0 0 0 0 26 32 19 – 6 1 7 3 12 11 22 19
Bud Site 0 0 0 0 0 0 0 1 0 0 1 0 0 0 0 – 0 0 – – – – – –
Cell Periphery 8 0 10 11 27 22 34 21 16 33 25 36 45 53 118 – 11 21 12 3 15 36 80 77
Cytoplasm 176 38 188 128 173 184 175 198 127 146 146 137 721 900 940 – 72 50 107 26 69 59 126 149
Endoplasmic Reticulum 29 9 9 20 21 40 54 49 48 56 90 94 110 96 78 – 3 9 40 6 37 59 89 87
Endosome 0 0 7 2 35 26 24 38 15 13 10 18 1 1 3 – 0 2 4 2 6 3 12 6
Golgi 1 0 1 0 0 0 2 0 0 0 0 1 0 1 0 – 0 0 0 0 6 1 3 2
Mitochondria 8 7 28 31 51 155 203 300 263 296 269 267 1 1 1 – 11 5 43 12 39 66 99 100
Nucleus 0 0 0 0 0 0 3 1 1 2 0 1 1 0 4 – 0 0 0 0 0 0 0 0
Nuclear Periphery 0 0 0 1 0 1 3 0 2 0 3 1 0 0 1 – 0 0 0 0 1 0 0 0
Nucleolus 0 0 1 1 0 0 0 4 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0
Peroxisomes 0 0 10 5 23 6 6 4 1 5 0 4 0 0 0 – 0 1 0 0 2 0 1 1
SpindlePole 1 0 2 0 3 1 1 3 1 2 0 1 4 2 3 – 2 2 0 0 2 1 5 2
Vac/Vac Membrane 0 0 1 0 17 8 20 22 31 24 23 29 2 7 27 – 0 0 9 3 6 7 18 24
Unique Cell Count 223 52 243 177 285 362 441 539 419 460 467 498 891 1050 1124 96 97 268 68 276 324 585 587
Labelled Cell Count 242 57 274 219 359 459 543 665 536 603 605 632 982 1138 1223 114 113 268 68 276 324 585 587


Endoplasmic Reticulum

(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) 4.2 3.7 4.5 4.6 5.0 4.8 4.7 4.9 4.8 4.7 4.8 5.2 5.8 6.1 6.4 4.6 5.1 6.4 6.0 6.0 5.9
Std Deviation (1e-4) 0.8 0.9 1.9 1.5 1.3 1.9 1.4 1.4 1.5 1.3 1.1 1.2 1.0 1.1 1.1 0.8 0.7 1.1 1.5 1.3 1.4
Intensity Change (Log2) – – – 0.01 0.15 0.09 0.07 0.13 0.08 0.06 0.08 0.2 0.37 0.44 0.5 0.02 0.17 0.5 0.4 0.4 0.37


Localization RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3
Actin – – – – – – – – – – – – – – –
Bud – – – – – – – – – – – – – – –
Bud Neck – – – – – – – – – – – – – – –
Bud Site – – – – – – – – – – – – – – –
Cell Periphery – – – – – – – – – – – – – – –
Cyto – – – – – – – – – – – – – – –
Endoplasmic Reticulum – – – – – – – – – – – – – – –
Endosome – – – – – – – – – – – – – – –
Golgi – – – – – – – – – – – – – – –
Mitochondria – – – – – – – – – – – – – – –
Nuclear Periphery – – – – – – – – – – – – – – –
Nuc – – – – – – – – – – – – – – –
Nucleolus – – – – – – – – – – – – – – –
Peroxisomes – – – – – – – – – – – – – – –
SpindlePole – – – – – – – – – – – – – – –
Vac – – – – – – – – – – – – – – –
Cortical Patches – – – – – – – – – – – – – – –
Cytoplasm – – – – – – – – – – – – – – –
Nucleus – – – – – – – – – – – – – – –
Vacuole – – – – – – – – – – – – – – –

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 2.3214 1.5003 1.4426 1.5557 1.9129 1.5664 1.4467 2.5374 1.2678 1.7543 0.8617 1.4904 1.6734 1.4003 1.0054 1.3668 1.2738 1.3403
Actin 0.0552 0.0051 0.0137 0.09 0.0558 0.0156 0.011 0.0212 0.0565 0.0341 0.0102 0.0247 0.0641 0.0156 0.0053 0.003 0.1124 0.0168
Bud 0.0061 0.0043 0.0033 0.0065 0.0021 0.0005 0.0022 0.0002 0.0014 0.0008 0.0004 0.0005 0.0014 0.0023 0.0007 0.0004 0.0012 0.0002
Bud Neck 0.0151 0.0017 0.0015 0.0108 0.0029 0.0276 0.004 0.007 0.0104 0.0125 0.0009 0.0109 0.0031 0.0019 0.0105 0.0008 0.0026 0.0082
Bud Periphery 0.0113 0.01 0.009 0.0174 0.0068 0.0018 0.0056 0.0004 0.0052 0.0015 0.0023 0.0028 0.0041 0.0051 0.0076 0.0027 0.0046 0.0008
Bud Site 0.0225 0.0599 0.0116 0.0451 0.0076 0.0016 0.0101 0.0579 0.0041 0.0031 0.0007 0.0003 0.0079 0.0337 0.0187 0.0008 0.0021 0.0004
Cell Periphery 0.0071 0.0057 0.0048 0.0124 0.0111 0.0039 0.0086 0.0079 0.0085 0.0053 0.004 0.0048 0.0239 0.0194 0.0073 0.0093 0.0103 0.0074
Cytoplasm 0.2564 0.3231 0.3594 0.159 0.1877 0.3896 0.3075 0.3416 0.401 0.3897 0.3376 0.4342 0.2612 0.431 0.4221 0.311 0.3442 0.4979
Cytoplasmic Foci 0.0425 0.0282 0.0249 0.0304 0.0793 0.0348 0.1069 0.0163 0.0288 0.0329 0.0137 0.0349 0.0383 0.0267 0.0177 0.0435 0.0207 0.0149
Eisosomes 0.0009 0.0006 0.0006 0.0021 0.0015 0.0004 0.0008 0.0018 0.0015 0.0016 0.0006 0.0007 0.0022 0.0008 0.0008 0.0012 0.0012 0.0006
Endoplasmic Reticulum 0.0923 0.0741 0.0543 0.0412 0.0373 0.0607 0.0518 0.0608 0.0593 0.0902 0.0344 0.0837 0.1099 0.0773 0.1058 0.2725 0.0971 0.0969
Endosome 0.0381 0.0217 0.0223 0.028 0.04 0.0185 0.0255 0.0288 0.0148 0.0181 0.0079 0.0178 0.0143 0.0083 0.012 0.0235 0.005 0.0097
Golgi 0.0096 0.0049 0.0077 0.0179 0.0109 0.0043 0.0067 0.0031 0.009 0.0116 0.0129 0.0115 0.0083 0.014 0.0044 0.006 0.0116 0.0068
Lipid Particles 0.0261 0.0078 0.0086 0.0083 0.0206 0.0077 0.0165 0.0092 0.0134 0.0074 0.0479 0.0074 0.0205 0.0265 0.0112 0.0238 0.0094 0.0094
Mitochondria 0.0026 0.0026 0.0102 0.0113 0.007 0.0025 0.0312 0.0003 0.0043 0.0016 0.0006 0.0061 0.0026 0.0006 0.0024 0.0027 0.0011 0.0083
None 0.3705 0.4358 0.4441 0.458 0.4488 0.4043 0.3447 0.423 0.372 0.3713 0.5223 0.3525 0.4085 0.3308 0.3635 0.2836 0.358 0.3146
Nuclear Periphery 0.0065 0.0029 0.0039 0.0044 0.0093 0.007 0.0141 0.0024 0.0014 0.0012 0.0009 0.0014 0.0049 0.0011 0.0026 0.003 0.0007 0.0017
Nucleolus 0.0009 0.0007 0.0006 0.0023 0.0016 0.0012 0.001 0.0003 0.0002 0.0002 0.0001 0.0001 0.001 0.0003 0.0002 0.0002 0.0001 0.0001
Nucleus 0.0082 0.0021 0.0021 0.0048 0.0041 0.0028 0.0026 0.0013 0.0009 0.0005 0.0006 0.0007 0.0035 0.0008 0.0011 0.0009 0.0003 0.0005
Peroxisomes 0.0115 0.0011 0.0098 0.017 0.0433 0.0027 0.0308 0.0003 0.0025 0.0126 0.0005 0.0013 0.0098 0.0009 0.0003 0.0045 0.0149 0.0014
Punctate Nuclear 0.0094 0.0018 0.0023 0.0195 0.0078 0.0099 0.0093 0.0009 0.001 0.0006 0.0004 0.0006 0.0029 0.0009 0.0006 0.0022 0.0016 0.0004
Vacuole 0.0063 0.0055 0.0046 0.0119 0.0125 0.0021 0.0059 0.0147 0.0035 0.0029 0.001 0.0024 0.0067 0.0019 0.0047 0.0038 0.0007 0.0024
Vacuole Periphery 0.0008 0.0005 0.0007 0.0017 0.0019 0.0005 0.0033 0.0005 0.0004 0.0003 0.0001 0.0006 0.0009 0.0001 0.0005 0.0005 0.0001 0.0004

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 11.9935 14.2953 11.0497 18.3476 12.0945 16.6485 15.3573 22.153 17.8229 17.1807
Translational Efficiency 0.6279 0.5447 0.788 0.4516 0.4671 0.6115 0.5838 0.3616 0.6019 0.3913

Hit Data

Dataset Hit
Protein Concentration ✘
Protein Localization ✘
Gene Expression ✘
Translational Efficiency ✘
Standard name
Human Ortholog
Description Ubiquitin-protein ligase involved in ER-associated degradation (ERAD) of misfolded proteins; upon autoubiquitination triggers retrotranslocation of misfolded proteins to cytosol for degradation; genetically linked to the unfolded protein response (UPR); regulated through association with Hrd3p; contains an H2 ring finger; likely plays a general role in targeting proteins that persistently associate with and potentially obstruct the ER-localized translocon
Localization
Cell Percentages ER (85%)
Cell Cycle Regulation No
Subcompartmental Group ER-3

Hrd1

Hrd1


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 (Hrd1-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