Standard name
Human Ortholog
Description Substrate-recruiting cofactor of the Cdc48p-Npl4p-Ufd1p segregase; assists Cdc48p in the dislocation of misfolded, polyubiquitinated ERAD substrates that are subsequently delivered to the proteasome for degradation; also involved in the regulated destruction of resident ER membrane proteins, such as HMG-CoA reductase (Hmg1/2p) and cytoplasmic proteins (Fbp1p); role in mobilizing membrane bound transcription factors by regulated ubiquitin/proteasome-dependent processing (RUP)
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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 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 0 0 0 0 0 0
Cytoplasm 0.63 0.65 0.44 0.32 0.36 0.41 0.3 0.31 0.33 0.27 0.32 0.24 0.54 0.61 0.51 0.18 0.23 0.24 0.46 0.49 0.36 0.39 0.3 0.18
Endoplasmic Reticulum 0 0 0 0.05 0 0.06 0.05 0.07 0 0 0 0 0 0 0 0 0 0 0.07 0.08 0.13 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 0.05
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 0 0 0 0 0 0.05 0.23 0.09 0 0 0 0 0 0 0 0 0 0 0 0
Nucleus 0.07 0.07 0.09 0.23 0.16 0.16 0.18 0.22 0.14 0.2 0.16 0.17 0 0.11 0.1 0.07 0 0.06 0.18 0.15 0.18 0.35 0.3 0.39
Nuclear Periphery 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.06 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 0.45 0.42 0.62 0.59 0.58 0.51 0.58 0.55 0.6 0.57 0.42 0.58 0.56 0.56 0.62 0.79 0.78 0.79 0.12 0.16 0.21 0.13 0.16 0.21
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 1 2 1 3 2 0 0 0 0 0 1 1 1 2 2 0 0 1 0
Bud 0 0 0 0 0 1 2 0 0 0 2 2 0 0 0 0 0 0 10 10 5 4 5 9
Bud Neck 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 1 2 1 0 3
Bud Site 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 – – – – – –
Cell Periphery 0 0 1 0 0 1 2 3 0 2 3 1 0 0 0 2 4 0 0 0 0 0 0 0
Cytoplasm 164 331 89 53 71 87 105 113 83 61 72 56 124 133 134 74 87 76 145 276 85 43 46 40
Endoplasmic Reticulum 6 18 6 9 8 12 19 26 4 7 4 1 6 8 1 5 9 9 22 45 30 3 6 5
Endosome 0 1 0 1 0 0 3 1 1 0 0 6 2 1 0 3 3 1 5 10 2 1 6 10
Golgi 1 3 0 0 1 0 0 0 0 0 0 0 1 0 2 7 13 7 1 1 1 0 0 1
Mitochondria 1 0 0 0 0 0 7 8 9 11 51 21 0 2 0 7 1 0 2 2 4 0 3 1
Nucleus 18 36 18 37 32 34 63 79 35 46 36 40 9 24 26 27 15 18 55 86 43 39 45 88
Nuclear Periphery 0 0 0 0 0 0 0 1 2 3 2 2 0 0 0 1 1 0 17 20 8 1 3 4
Nucleolus 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 1 0 0 0 0 0 0 1 2
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 1 0 0 0 0 1 0 2 4 1 1 5 6
Vac/Vac Membrane 117 215 124 96 116 108 203 199 150 131 94 136 128 121 162 318 293 251 36 90 50 14 24 48
Unique Cell Count 260 506 201 164 199 212 348 364 249 229 222 235 230 218 262 403 376 317 314 561 240 113 153 228
Labelled Cell Count 307 604 238 196 228 244 406 431 287 263 264 266 270 289 326 446 428 363 314 561 240 113 153 228


Cytoplasm, Nucleus

(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) 9.9 12.7 10.9 10.8 11.5 10.1 9.8 9.8 9.3 8.9 8.4 8.3 12.1 11.5 11.5 16.2 15.7 15.8 11.7 11.2 12.7
Std Deviation (1e-4) 1.5 1.8 1.7 1.6 1.9 1.9 1.7 1.6 2.0 1.8 1.8 1.6 2.3 1.9 1.8 4.2 4.7 4.5 2.4 2.2 2.3
Intensity Change (Log2) – – – -0.01 0.08 -0.12 -0.16 -0.15 -0.24 -0.29 -0.37 -0.39 0.15 0.08 0.08 0.57 0.53 0.53 0.11 0.04 0.22


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 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 -2.3 -1.8 -0.7 -3.3 -3.1 -2.4 -3.8 -2.5 -4.5 2.0 3.4 1.5 -6.8 -5.3 -4.8
Endoplasmic Reticulum 1.2 0.6 1.3 1.3 2.0 0 0 0 0 -0.2 0.4 0 0 -0.4 -0.1
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 0 0 0 0 0 0 3.1 7.2 4.3 0 0 0 0 0 0
Nucleus 3.6 2.2 2.2 2.9 3.8 1.7 3.2 2.2 2.5 -2.2 0.7 0.4 -1.0 -2.4 -1.4
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 -0.6 -0.7 -2.2 -0.8 -1.6 -0.3 -0.9 -4.0 -0.8 -1.3 -1.3 0 4.5 4.2 4.3

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 7.0176 7.6376 7.6939 6.8928 6.9662 7.2927 6.6044 7.3462 7.1039 6.4267 6.3463 6.7859 6.8354 8.4222 8.0438 8.3522 8.8784 7.6245
Actin 0.0001 0.0002 0.0003 0.0001 0.0004 0.0001 0.019 0.0004 0.0009 0.0009 0.0128 0.0013 0.0213 0.0005 0.0127 0.0106 0.0002 0.0002
Bud 0 0.0001 0.0018 0.0001 0.0001 0.0001 0.0004 0.0004 0.0001 0.0001 0.0002 0.0001 0.0058 0.0001 0.0001 0.001 0.0001 0.0001
Bud Neck 0.0005 0.0005 0.0009 0.0011 0.0012 0.0016 0.0032 0.0007 0.0005 0.0011 0.0023 0.0029 0.0012 0.0005 0.0013 0.0008 0.0014 0.002
Bud Periphery 0 0 0.0002 0 0.0001 0 0.0004 0.0001 0.0001 0.0001 0.0002 0.0002 0.0051 0 0.0001 0.001 0 0
Bud Site 0.0002 0.0006 0.0005 0.0001 0.0002 0 0.0028 0.0014 0.0003 0.0002 0.0006 0.0001 0.0039 0.0005 0.0005 0.0017 0.0002 0.0001
Cell Periphery 0.0001 0 0 0 0 0 0.0001 0 0 0 0.0001 0 0.0003 0 0 0.0001 0 0
Cytoplasm 0.2045 0.2905 0.2297 0.2293 0.3425 0.1855 0.2018 0.2817 0.2302 0.3307 0.2775 0.2185 0.2893 0.3842 0.3249 0.3852 0.4073 0.3062
Cytoplasmic Foci 0.0014 0.0013 0.0019 0.0007 0.0023 0.0005 0.0085 0.001 0.001 0.0069 0.0064 0.0013 0.0141 0.0006 0.0008 0.002 0.0054 0.0013
Eisosomes 0 0 0 0 0 0 0.0001 0 0 0 0.0001 0 0.0001 0 0 0.0001 0 0
Endoplasmic Reticulum 0.0135 0.0067 0.0075 0.0126 0.0256 0.0109 0.0182 0.0094 0.0124 0.0357 0.0171 0.0187 0.0218 0.012 0.0136 0.0086 0.0059 0.0118
Endosome 0.0069 0.0056 0.0047 0.0033 0.0115 0.0033 0.0208 0.003 0.0055 0.0163 0.027 0.0077 0.0288 0.0015 0.0019 0.0119 0.0049 0.007
Golgi 0.0001 0.0001 0.0001 0 0.0001 0 0.0033 0.0001 0.0002 0.0003 0.0049 0.0002 0.0077 0 0.0001 0.0016 0.0001 0.0002
Lipid Particles 0.0001 0.0001 0.0001 0 0.0001 0 0.005 0.0001 0.0002 0.0001 0.0195 0.0001 0.0093 0 0.0001 0.0008 0 0.001
Mitochondria 0.0004 0.0003 0.0005 0.0003 0.0007 0.0003 0.0035 0.0003 0.0006 0.0009 0.006 0.0008 0.0049 0.0003 0.0003 0.0055 0.0005 0.0003
None 0.0108 0.0014 0.0061 0.0007 0.0056 0.0005 0.0042 0.0014 0.0014 0.0027 0.0023 0.0014 0.0119 0.002 0.0006 0.0025 0.0013 0.0013
Nuclear Periphery 0.1087 0.0637 0.0715 0.0935 0.0878 0.0713 0.1077 0.0591 0.0767 0.1028 0.1092 0.0798 0.1187 0.0702 0.0807 0.0464 0.0242 0.0602
Nucleolus 0.0006 0.0007 0.0008 0.0005 0.0005 0.0005 0.0011 0.0006 0.0005 0.0005 0.0018 0.0006 0.001 0.0003 0.0005 0.0008 0.0003 0.0005
Nucleus 0.6407 0.6192 0.6647 0.649 0.507 0.7191 0.5744 0.6331 0.662 0.487 0.4849 0.6563 0.4304 0.5221 0.5533 0.5096 0.5388 0.5988
Peroxisomes 0 0 0.0001 0 0 0 0.0067 0 0 0.0002 0.0065 0.0001 0.0071 0 0.0001 0.0005 0.0001 0
Punctate Nuclear 0.0043 0.0048 0.0054 0.0042 0.0055 0.0027 0.0124 0.0042 0.0038 0.0093 0.0152 0.0056 0.0097 0.0025 0.0059 0.0043 0.0072 0.0058
Vacuole 0.0057 0.0036 0.0028 0.0033 0.0072 0.0028 0.0049 0.0025 0.0028 0.003 0.0041 0.0034 0.0056 0.0021 0.002 0.0032 0.0017 0.0026
Vacuole Periphery 0.0012 0.0007 0.0007 0.0009 0.0016 0.0008 0.0015 0.0005 0.0008 0.0011 0.0015 0.0011 0.0019 0.0004 0.0005 0.0018 0.0003 0.0007

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 27.5376 16.4113 26.8754 31.4512 20.9298 34.1657 30.1829 34.3708 36.6889 28.3047
Translational Efficiency 1.2932 2.0927 1.238 1.236 1.4944 1.3467 1.494 1.2777 1.2309 1.2601

Hit Data

Dataset Hit
Protein Concentration ✘
Protein Localization ✘
Gene Expression ✘
Translational Efficiency ✘
Standard name
Human Ortholog
Description Substrate-recruiting cofactor of the Cdc48p-Npl4p-Ufd1p segregase; assists Cdc48p in the dislocation of misfolded, polyubiquitinated ERAD substrates that are subsequently delivered to the proteasome for degradation; also involved in the regulated destruction of resident ER membrane proteins, such as HMG-CoA reductase (Hmg1/2p) and cytoplasmic proteins (Fbp1p); role in mobilizing membrane bound transcription factors by regulated ubiquitin/proteasome-dependent processing (RUP)
Localization
Cell Percentages ER (23%), cytoplasm (22%), mixed (47%)
Cell Cycle Regulation No
Subcompartmental Group N/A

Npl4

Npl4


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 (Npl4-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