Standard name
Human Ortholog
Description Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress
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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 0.06 0.1 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
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 0.05 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Cytoplasm 0.62 0.76 0.53 0.62 0.55 0.56 – 0.38 0.45 0.41 0.44 0.39 0.43 0.59 0.48 0.84 0.8 0.75 0.4 0.49 0.6 0.5 0.6 0.58
Endoplasmic Reticulum 0 0 0 0 0 0 – 0.05 0 0 0 0 0 0 0 0 0 0 0 0 0 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
Golgi 0 0 0 0 0 0 – 0 0 0 0 0 0 0.06 0.14 0 0 0 0 0 0 0 0 0
Mitochondria 0 0 0.08 0.18 0.07 0.2 – 0.2 0.33 0.34 0.3 0.35 0 0 0 0 0 0 0 0 0 0.05 0 0
Nucleus 0.08 0.07 0.08 0 0 0 – 0 0 0.06 0.11 0.11 0 0 0 0 0 0 0.44 0.34 0.2 0.19 0.17 0.2
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 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 0.47 0.28 0.38 0.27 0.41 0.27 – 0.43 0.24 0.28 0.21 0.17 0.6 0.32 0.33 0.2 0.24 0.27 0.07 0.1 0.06 0.13 0.12 0.11
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 – 1 0 2 1 0 3 12 25 0 0 0 0 1 2 1 0 2
Bud 0 0 5 0 0 1 – 1 1 7 3 5 0 3 8 0 0 0 9 4 2 1 5 6
Bud Neck 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 1
Bud Site 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0 0 – – – – – –
Cell Periphery 0 0 0 1 4 4 – 12 5 11 5 6 2 1 2 0 3 7 0 0 0 0 0 0
Cytoplasm 174 128 82 70 95 128 – 118 105 100 97 97 93 120 126 108 139 172 126 96 105 56 128 152
Endoplasmic Reticulum 1 2 4 5 4 5 – 15 6 2 8 10 2 6 11 5 5 2 1 1 2 3 4 3
Endosome 0 0 0 1 4 1 – 0 1 1 0 0 6 6 6 0 0 0 3 1 2 2 1 2
Golgi 0 1 0 0 2 0 – 2 1 1 0 0 7 12 37 0 2 2 0 0 0 0 1 1
Mitochondria 2 3 13 20 12 45 – 61 78 83 65 88 1 3 0 1 2 1 1 1 1 5 2 2
Nucleus 22 11 12 3 1 1 – 13 10 14 25 28 1 4 1 0 0 3 137 66 34 21 35 53
Nuclear Periphery 0 0 0 0 0 1 – 2 2 1 0 1 0 0 1 0 0 0 2 0 2 0 1 2
Nucleolus 0 0 1 0 4 2 – 2 5 1 0 0 2 2 2 1 0 0 0 0 0 2 1 1
Peroxisomes 0 0 0 0 0 0 – 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0
SpindlePole 0 0 0 0 0 0 – 0 0 0 0 0 0 1 3 0 0 0 2 0 1 0 0 0
Vac/Vac Membrane 132 48 58 30 71 61 – 134 56 67 46 43 130 66 87 25 42 62 21 19 10 14 25 28
Unique Cell Count 282 169 154 112 172 228 311 235 243 220 250 218 205 260 128 174 229 313 198 177 113 214 266
Labelled Cell Count 331 193 175 130 197 249 361 270 290 250 278 247 237 309 140 193 249 313 198 177 113 214 266


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) 12.9 16.3 9.4 12.1 12.9 11.5 – 11.5 10.8 11.4 11.6 11.2 14.6 14.5 14.7 18.9 19.8 19.5 13.6 15.9 16.2
Std Deviation (1e-4) 2.8 3.0 2.4 2.9 2.8 2.5 – 2.7 3.1 2.9 3.2 2.8 3.1 2.6 2.7 6.2 5.7 5.6 3.5 3.1 3.4
Intensity Change (Log2) – – – 0.36 0.45 0.29 – 0.29 0.19 0.27 0.29 0.24 0.63 0.61 0.64 1.0 1.07 1.04 0.53 0.75 0.77


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 3.1 4.0 0 0 0
Bud 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
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 1.5 0.4 0.6 – -3.1 -1.7 -2.4 -1.7 -2.8 -2.0 1.0 -0.9 5.6 5.1 4.4
Endoplasmic Reticulum 0 0 0 – 1.1 0 0 0 0.7 0 0 0.9 0 0 0
Endosome 0 0 0 – 0 0 0 0 0 0 0 0 0 0 0
Golgi 0 0 0 – 0 0 0 0 0 0 3.1 4.9 0 0 0
Mitochondria 2.3 -0.5 3.0 – 3.1 5.6 5.8 4.9 6.0 -4.0 -3.2 0 -2.9 -3.2 -4.1
Nucleus -1.8 -3.3 -3.9 – -1.6 -1.5 -0.8 1.1 1.1 -3.8 -2.7 0 -3.2 -3.8 -3.2
Nuclear Periphery 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
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 -1.9 0.7 -2.3 – 1.1 -2.9 -2.1 -3.6 -4.6 4.2 -1.1 -0.9 -3.3 -2.7 -2.2

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 6.2271 9.0697 8.024 7.8038 5.7876 7.7083 6.3655 8.7097 7.1507 6.5332 5.7903 7.6385 7.8377 10.3292 9.4229 8.0614 9.7947 9.4161
Actin 0.0195 0.0013 0.0009 0.0004 0.0293 0.0045 0.0244 0.0013 0.0142 0.0006 0.0012 0.0008 0.0192 0.0024 0.0279 0.0037 0.0018 0.0049
Bud 0.0019 0.0002 0.0004 0.0002 0.0008 0.0005 0.0016 0.0005 0.0011 0.0002 0.0007 0.0003 0.0013 0.0003 0.0007 0.0003 0.0001 0.0003
Bud Neck 0.0012 0.0004 0.0006 0.0008 0.0026 0.0024 0.0011 0.0003 0.0009 0.0011 0.0006 0.002 0.0012 0.0005 0.0007 0.0012 0.0005 0.002
Bud Periphery 0.002 0 0.0003 0 0.0006 0.0002 0.0009 0.0002 0.0008 0.0001 0.0015 0.0001 0.0009 0.0001 0.001 0.0001 0 0.0005
Bud Site 0.0096 0.0011 0.0007 0.0002 0.0018 0.0004 0.0038 0.0028 0.0025 0.0004 0.0004 0.0002 0.0157 0.002 0.0043 0.0003 0.0001 0.0012
Cell Periphery 0.0004 0 0.0001 0 0.0001 0.0001 0.0003 0 0.0001 0 0.0002 0 0.0002 0.0001 0.0002 0 0 0.0001
Cytoplasm 0.4844 0.811 0.7724 0.8037 0.5278 0.7463 0.4648 0.8038 0.7371 0.6812 0.7224 0.7255 0.6247 0.8248 0.7844 0.6378 0.7842 0.6256
Cytoplasmic Foci 0.0485 0.0076 0.0178 0.004 0.082 0.0103 0.0539 0.0092 0.024 0.0343 0.0065 0.0109 0.0396 0.0131 0.0174 0.0351 0.0142 0.0242
Eisosomes 0.0004 0 0 0 0.0002 0 0.0002 0 0.0001 0 0 0 0.0001 0 0.0003 0 0 0.0001
Endoplasmic Reticulum 0.0365 0.0023 0.0055 0.0042 0.0023 0.0084 0.0329 0.004 0.0073 0.0062 0.008 0.0078 0.0249 0.0037 0.0071 0.0046 0.0092 0.0149
Endosome 0.1624 0.0032 0.0248 0.0098 0.0573 0.0179 0.0818 0.0149 0.0364 0.016 0.0145 0.0264 0.0541 0.0028 0.01 0.0033 0.008 0.0281
Golgi 0.0185 0.0005 0.0047 0.0003 0.0785 0.0061 0.0149 0.0038 0.024 0.0007 0.0023 0.0026 0.0151 0.0005 0.0036 0.0011 0.0061 0.0035
Lipid Particles 0.0088 0 0.0014 0.0001 0.0047 0.0021 0.0132 0.0002 0.0032 0.0005 0.0001 0.0051 0.0075 0.0001 0.0019 0.0017 0.0093 0.0085
Mitochondria 0.0354 0.0003 0.005 0.0005 0.0877 0.027 0.0084 0.0018 0.0207 0.0005 0.0793 0.0014 0.0205 0.0003 0.0041 0.0004 0.0022 0.0049
None 0.0101 0.0022 0.0108 0.0011 0.0005 0.001 0.031 0.0016 0.0125 0.0036 0.0018 0.0017 0.0081 0.0018 0.002 0.0019 0.0009 0.0016
Nuclear Periphery 0.0441 0.0084 0.0109 0.0123 0.01 0.0189 0.0648 0.0109 0.0122 0.0136 0.015 0.0222 0.03 0.0101 0.0164 0.011 0.02 0.0383
Nucleolus 0.0012 0.0001 0.0002 0.0001 0.0001 0.0002 0.0013 0.0001 0.0001 0.0003 0.0001 0.0002 0.0004 0.0001 0.0004 0.0002 0 0.0005
Nucleus 0.0827 0.1583 0.1377 0.158 0.0976 0.1323 0.1662 0.1406 0.0928 0.229 0.1392 0.1797 0.112 0.1276 0.1087 0.2278 0.0802 0.224
Peroxisomes 0.0052 0.0004 0.0005 0.0001 0.0125 0.0134 0.0046 0.0002 0.004 0.0004 0.0002 0.0041 0.0122 0.0059 0.0046 0.0645 0.0595 0.0056
Punctate Nuclear 0.0097 0.0015 0.0017 0.0014 0.0006 0.002 0.019 0.0017 0.0013 0.0094 0.0013 0.0024 0.0078 0.0026 0.0022 0.0036 0.0024 0.0053
Vacuole 0.012 0.0009 0.0029 0.0024 0.0018 0.0046 0.0075 0.0017 0.0033 0.0017 0.0029 0.005 0.003 0.0009 0.0016 0.0011 0.0007 0.0041
Vacuole Periphery 0.0057 0.0002 0.0007 0.0006 0.0011 0.0012 0.0035 0.0004 0.0013 0.0004 0.002 0.0015 0.0015 0.0002 0.0007 0.0002 0.0003 0.0021

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 53.6377 68.4983 50.8287 66.7758 49.674 53.608 71.8558 70.1173 48.8009 71.0875
Translational Efficiency 1.583 1.6718 1.9609 1.2679 1.6531 1.4893 1.4429 1.7266 2.1243 1.7503

Hit Data

Dataset Hit
Protein Concentration ✘
Protein Localization ✘
Gene Expression ✘
Translational Efficiency ✘
Standard name
Human Ortholog
Description Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress
Localization
Cell Percentages cytoplasm (71%)
Cell Cycle Regulation No
Subcompartmental Group cytoplasm-6

Lsm2

Lsm2


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 (Lsm2-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