Standard name
Human Ortholog
Description Component of serine palmitoyltransferase; responsible along with Lcb1p for the first committed step in sphingolipid synthesis, which is the condensation of serine with palmitoyl-CoA to form 3-ketosphinganine
DOWNLOAD

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 0.12 0.15 0.2 0.22 0.16 0.11 0.11 0.2 – 0.13 0.17 0.16 0.1 0.06 0 0.25 0.18 0.12 0 0.05 0.07 0.06 0.06 0
Bud 0 0 0 0 0 0 0 0 – 0 0.05 0 0 0 0 0 0.06 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 0.08 0.19 0.2 0.24 0.15 0.14 0.1 0.1 – 0.13 0.13 0.14 0.21 0.23 0.21 0.35 0.24 0.31 0 0.05 0.09 0.1 0.14 0.13
Cytoplasm 0.12 0.15 0.07 0.09 0.07 0.1 0.11 0.13 – 0.09 0.11 0.1 0.07 0.08 0.1 0.25 0.53 0.38 0 0 0 0 0 0
Endoplasmic Reticulum 0.82 0.74 0.83 0.72 0.77 0.78 0.74 0.65 – 0.63 0.45 0.56 0.81 0.81 0.82 0 0 0 0.89 0.79 0.8 0.77 0.75 0.77
Endosome 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Golgi 0 0 0.05 0.13 0.12 0 0 0 – 0 0 0 0 0 0 0 0.12 0.12 0 0 0 0 0 0
Mitochondria 0.06 0 0.09 0.27 0.14 0.19 0.2 0.23 – 0.34 0.45 0.32 0 0 0 0.15 0.06 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
Nuclear Periphery 0 0 0 0 0 0 0 0 – 0.06 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 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 0 0 0.06 – 0 0 0.06 0 0 0 0.07 0.06 0 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 22 28 47 42 50 32 36 67 – 55 60 67 87 64 33 24 3 9 6 10 17 22 34 16
Bud 1 4 1 1 4 2 3 2 – 9 18 12 5 5 6 1 1 0 1 0 0 1 0 0
Bud Neck 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0 3 0 1 1 3
Bud Site 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 – – – – – –
Cell Periphery 16 35 48 45 46 43 33 33 – 54 46 60 195 232 219 34 4 22 5 10 22 36 88 71
Cytoplasm 22 27 16 18 21 31 36 45 – 36 40 41 65 82 103 24 9 27 1 6 1 2 7 8
Endoplasmic Reticulum 155 135 200 137 241 233 244 224 – 258 161 233 742 805 851 1 0 2 188 165 195 283 465 415
Endosome 0 0 0 0 0 1 0 2 – 0 2 1 0 1 0 1 0 0 0 0 0 3 2 0
Golgi 6 0 12 24 38 9 12 3 – 0 3 5 12 3 6 3 2 9 0 0 1 3 5 6
Mitochondria 11 5 22 51 45 57 65 80 – 140 158 132 0 0 0 14 1 10 2 4 1 8 7 9
Nucleus 0 0 0 0 1 0 0 1 – 0 0 0 0 0 3 0 0 0 0 0 0 0 0 0
Nuclear Periphery 1 2 0 2 2 3 6 10 – 23 7 13 0 0 0 1 0 0 0 0 0 0 1 0
Nucleolus 1 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 1 0 1 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 5 0 0 0 3 11 5 22 – 8 10 25 10 7 6 7 1 3 3 6 0 1 2 5
Unique Cell Count 189 183 241 191 311 298 331 343 411 355 414 911 1000 1040 96 17 72 213 211 246 367 620 541
Labelled Cell Count 240 236 347 320 452 422 440 489 583 505 589 1116 1199 1227 110 21 82 213 211 246 367 620 541


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) 13.4 14.1 14.0 14.4 14.0 12.6 12.3 11.9 – 11.2 11.2 12.1 14.8 15.4 16.1 9.8 12.3 13.9 15.3 15.5 15.7
Std Deviation (1e-4) 1.9 2.3 2.2 2.1 2.0 2.1 2.2 2.5 – 2.1 2.3 2.4 2.0 1.9 2.0 1.7 3.2 3.1 2.0 2.4 2.4
Intensity Change (Log2) – – – 0.04 -0.0 -0.14 -0.19 -0.24 – -0.32 -0.31 -0.21 0.08 0.14 0.21 -0.51 -0.18 -0.01 0.14 0.15 0.17


Localization RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3
Cortical Patches 0.6 -1.0 -2.9 -2.9 0 – -2.1 -0.8 -1.1 -4.3 -6.4 -9.4 1.1 0 -1.4
Bud 0 0 0 0 0 – 0 3.2 0 0 0 0 0 0 0
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 0.9 -1.6 -1.7 -3.4 -3.5 – -2.3 -2.3 -1.8 0.5 1.1 0.4 3.0 0 1.9
Cytoplasm 1.1 0.1 1.5 1.7 2.5 – 1.0 1.9 1.4 0.3 0.8 1.6 4.7 0 6.7
Endoplasmic Reticulum -2.8 -1.6 -1.4 -2.6 -4.7 – -5.4 -9.2 -7.0 -0.6 -0.9 -0.4 -13.8 -7.9 -12.5
Endosome 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0
Golgi 2.8 2.9 -1.2 -0.8 -3.1 – 0 -3.2 -2.9 -3.5 0 0 0 0 0
Mitochondria 4.8 1.9 3.3 3.5 4.4 – 7.1 9.2 6.6 0 0 0 1.5 0 1.2
Nucleus 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0
Nuclear Periphery 0 0 0 0 0 – 3.7 0 0 0 0 0 0 0 0
Nucleolus 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
SpindlePole 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0
Vacuole 0 0 0 0 4.0 – 0 0 3.9 0 0 0 0 0 0

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 13.9117 15.438 15.1597 15.1418 15.2142 14.9838 14.618 17.7973 17.3161 16.2407 14.8978 15.863 18.9727 19.3225 18.5759 18.7494 17.7501 17.3587
Actin 0.0304 0.0044 0.0154 0.004 0.0108 0.0017 0.0171 0.0037 0.0014 0.0006 0.0012 0.0026 0.003 0.0066 0.004 0.0019 0.0001 0.0027
Bud 0.0005 0.0002 0.0009 0.0001 0.0001 0 0.0003 0.0002 0.0001 0.0004 0.0001 0.0001 0 0.0014 0.0005 0.0001 0 0
Bud Neck 0.0013 0.001 0.0013 0.0007 0.0064 0.0019 0.0004 0.0006 0.0012 0.0007 0.0007 0.0032 0.0004 0.0006 0.0034 0.0046 0.0003 0.0048
Bud Periphery 0.0013 0.0009 0.0019 0.0003 0.0008 0.0004 0.0006 0.0011 0.0014 0.0008 0.0003 0.0004 0.0002 0.003 0.0048 0.0016 0.0001 0.0004
Bud Site 0.0025 0.0019 0.0047 0.0002 0.0002 0 0.0006 0.0004 0.0003 0.003 0.0006 0.0001 0.0001 0.0061 0.0009 0.0003 0 0.0001
Cell Periphery 0.0184 0.0433 0.0211 0.0177 0.0163 0.0091 0.0199 0.0554 0.0362 0.0129 0.019 0.0157 0.0136 0.0248 0.0466 0.032 0.0207 0.0166
Cytoplasm 0.0587 0.0658 0.0315 0.009 0.0533 0.0097 0.0209 0.0075 0.0063 0.0034 0.078 0.0096 0.0116 0.008 0.0145 0.0034 0.0029 0.0164
Cytoplasmic Foci 0.0095 0.0023 0.0103 0.0037 0.0039 0.0006 0.012 0.0005 0.0008 0.0026 0.0019 0.0032 0.0104 0.0001 0.0004 0.0015 0.0001 0.0014
Eisosomes 0.002 0.0018 0.0008 0.0002 0.0013 0.0006 0.0004 0.0009 0.0011 0.0003 0.0017 0.0027 0.0031 0.0007 0.0016 0.0023 0.0008 0.0014
Endoplasmic Reticulum 0.7272 0.8195 0.8593 0.9134 0.8557 0.948 0.7435 0.8837 0.921 0.9065 0.7988 0.9038 0.9011 0.9372 0.9046 0.8765 0.9665 0.9361
Endosome 0.0287 0.0063 0.0084 0.0137 0.0146 0.0076 0.0489 0.0022 0.0026 0.032 0.0041 0.0116 0.0136 0.0003 0.0006 0.009 0.0004 0.003
Golgi 0.0131 0.0078 0.0092 0.0054 0.0177 0.0026 0.0171 0.0038 0.0077 0.004 0.0737 0.0142 0.0156 0.0013 0.0045 0.0486 0.0026 0.005
Lipid Particles 0.0175 0.0274 0.0054 0.0181 0.0099 0.0044 0.0316 0.0258 0.0077 0.0029 0.0092 0.013 0.0125 0.0014 0.0035 0.0016 0.0009 0.0029
Mitochondria 0.0144 0.0021 0.0017 0.0005 0.0006 0.0005 0.0071 0.0007 0.0004 0.0021 0.0001 0.0012 0.0037 0.0001 0.0002 0.001 0.0001 0.0002
None 0.0097 0.0006 0.0148 0.0006 0.0002 0.0007 0.0118 0.0001 0.0001 0.0002 0.0014 0.0007 0.0002 0.0001 0.0001 0.0001 0.0001 0.0005
Nuclear Periphery 0.0216 0.0069 0.0053 0.0058 0.0042 0.0079 0.0298 0.0075 0.0063 0.0049 0.0034 0.012 0.0068 0.006 0.0054 0.0092 0.003 0.0043
Nucleolus 0.0008 0.0001 0.0003 0.0001 0 0.0001 0.0005 0 0 0.0002 0.0001 0 0 0 0 0.0001 0 0
Nucleus 0.0178 0.0007 0.0007 0.0005 0.0004 0.0006 0.0119 0.0003 0.0003 0.0006 0.0007 0.0005 0.0002 0.0002 0.0002 0.0004 0.0001 0.0004
Peroxisomes 0.0037 0.0001 0.0008 0.0007 0.0003 0.0001 0.0071 0 0 0.0002 0 0.0001 0.0004 0 0 0 0 0
Punctate Nuclear 0.014 0.0003 0.0023 0.0029 0.0005 0.0006 0.0082 0.0001 0.0001 0.0001 0.0004 0.0003 0.0002 0 0 0 0 0.0011
Vacuole 0.0056 0.0059 0.0034 0.0021 0.0024 0.0022 0.0083 0.0049 0.0045 0.0186 0.0044 0.0023 0.0025 0.0018 0.0036 0.0047 0.0012 0.0023
Vacuole Periphery 0.0013 0.0005 0.0006 0.0003 0.0004 0.0006 0.0019 0.0005 0.0005 0.0028 0.0002 0.0027 0.0005 0.0002 0.0004 0.0009 0.0001 0.0003

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 118.4556 88.3409 98.1121 92.1931 81.8826 104.6542 95.2367 93.4232 84.1946 108.8353
Translational Efficiency 0.8464 0.9668 0.7327 0.7966 0.9122 0.9421 0.9386 0.7122 0.8929 0.7852

Hit Data

Dataset Hit
Protein Concentration ✘
Protein Localization ✘
Gene Expression ✘
Translational Efficiency ✘
Standard name
Human Ortholog
Description Component of serine palmitoyltransferase; responsible along with Lcb1p for the first committed step in sphingolipid synthesis, which is the condensation of serine with palmitoyl-CoA to form 3-ketosphinganine
Localization
Cell Percentages ER (95%)
Cell Cycle Regulation No
Subcompartmental Group ER-3

Lcb2

Lcb2


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 (Lcb2-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