Standard name
Human Ortholog
Description Lsm (Like Sm) protein; forms heteroheptameric complex (with Lsm2p, Lsm3p, Lsm4p, Lsm5p, Lsm6p, and Lsm7p) involved in degradation of cytoplasmic mRNAs; also enters the nucleus and positively regulates transcription initiation; unlike most Sm-like proteins, Lsm1p requires both its SM-domain and C-terminal domain for RNA-binding; binds to mRNAs under glucose starvation, most often in the 3' UTR; forms 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 0.06 0.07 – 0.05 0.05 0 0.06 0.05 0.22 0.25 0 0 0 0 0 0 0 0 0
Bud 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0.09 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 0.08 0.08 0 0.08 – 0.06 0.05 0 0.07 0.06 0 0 0.13 0.1 0.06 0 0 0 0 0 0
Cytoplasm 0.93 0.99 0.94 0.85 0.74 0.65 0.56 – 0.53 0.56 0.45 0.38 0.82 0.56 0.38 0.84 0.89 0.87 0.91 0.94 0.92 0.86 0.8 0.86
Endoplasmic Reticulum 0 0 0 0.06 0.16 0.05 0.14 – 0.11 0.06 0.06 0.16 0.08 0.12 0.09 0 0 0 0 0 0.06 0.09 0.13 0.11
Endosome 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0.06 0 0 0 0 0 0 0 0 0
Golgi 0 0 0 0 0 0 0.05 – 0 0 0 0 0.05 0.25 0.37 0 0 0.06 0 0 0 0 0 0
Mitochondria 0 0 0 0 0 0.2 0.1 – 0.31 0.32 0.45 0.39 0 0 0 0 0 0 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 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 0.13 0.17 – 0.12 0.11 0.13 0.1 0 0 0 0 0 0.06 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 2 0 1 10 10 12 27 – 10 9 6 16 15 91 110 4 5 1 0 0 0 0 0 0
Bud 2 0 0 1 1 0 3 – 1 3 4 3 6 16 38 1 0 0 1 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 8 0 4 22 24 4 32 – 12 9 3 18 17 18 9 31 18 10 0 0 0 2 1 1
Cytoplasm 242 95 110 246 219 140 230 – 115 98 71 96 226 235 165 202 168 155 258 95 121 175 318 331
Endoplasmic Reticulum 11 0 2 17 47 10 58 – 24 11 9 39 21 50 39 9 4 5 8 0 7 17 52 40
Endosome 0 0 0 0 0 0 2 – 0 0 0 0 0 14 25 0 1 0 1 0 0 1 4 1
Golgi 2 0 0 2 10 1 22 – 0 3 0 5 14 104 159 4 1 10 0 0 0 1 1 1
Mitochondria 4 0 0 9 5 43 41 – 67 56 72 99 5 2 6 7 6 5 2 0 0 1 8 2
Nucleus 0 0 2 1 2 1 1 – 3 2 1 0 0 0 0 0 0 0 0 2 0 0 0 0
Nuclear Periphery 0 0 0 0 0 1 0 – 0 0 2 1 0 0 0 0 0 0 2 0 0 0 0 0
Nucleolus 0 0 0 1 0 0 0 – 0 0 0 0 0 2 4 0 0 0 0 0 0 0 1 2
Peroxisomes 0 0 0 0 0 0 0 – 0 0 0 0 0 0 2 0 0 0 0 0 0 0 0 0
SpindlePole 0 0 0 0 0 0 0 – 0 0 0 0 1 4 17 0 0 1 0 0 0 0 0 0
Vac/Vac Membrane 3 1 3 6 7 28 69 – 27 19 20 24 1 3 6 3 1 11 3 1 0 2 3 0
Unique Cell Count 261 96 117 288 294 215 414 217 175 159 251 274 417 434 240 189 178 283 102 132 204 398 384
Labelled Cell Count 274 96 122 315 325 240 485 259 210 188 301 306 539 580 261 204 198 283 102 132 204 398 384


Cytoplasm

(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) 14.2 13.6 11.9 13.3 14.1 9.5 12.3 – 9.8 9.5 8.6 9.6 17.1 17.7 17.7 16.5 16.7 17.0 14.8 15.4 15.6
Std Deviation (1e-4) 2.5 2.4 1.6 1.8 2.0 2.1 2.1 – 1.9 2.0 1.8 2.1 2.2 2.5 2.5 2.9 2.9 3.6 2.2 2.2 2.2
Intensity Change (Log2) – – – 0.16 0.25 -0.32 0.05 – -0.28 -0.32 -0.46 -0.31 0.53 0.57 0.58 0.47 0.49 0.52 0.31 0.38 0.4


Localization RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3
Cortical Patches 0 0 0 2.4 – 0 0 0 2.3 0 5.3 5.9 0 0 0
Bud 0 0 0 0 – 0 0 0 0 0 0 3.3 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 1.6 1.7 0 1.6 – 0.9 0.7 0 1.4 1.1 0 0 2.8 2.0 0.9
Cytoplasm -2.4 -4.5 -5.8 -7.7 – -7.6 -7.0 -8.5 -10.0 -3.0 -7.5 -10.8 -2.6 -1.5 -1.9
Endoplasmic Reticulum 1.8 4.0 0 3.7 – 3.0 1.9 0 3.9 2.3 3.3 2.7 0 0 0
Endosome 0 0 0 0 – 0 0 0 0 0 0 2.7 0 0 0
Golgi 0 0 0 0 – 0 0 0 0 0 6.0 7.8 0 0 0
Mitochondria 0 0 5.2 3.5 – 6.7 6.8 8.5 7.9 0 0 0 0 0 0
Nucleus 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
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 3.1 3.9 – 3.0 2.6 3.0 2.4 0 0 0 0 0 1.4

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 10.4191 12.7609 11.5561 10.6769 10.0912 11.8397 12.4659 16.419 15.904 15.1859 13.5813 15.0404 14.1901 16.2632 15.8215 15.068 14.8727 15.4731
Actin 0.0063 0.0018 0.0016 0.0011 0.0005 0.0011 0.0145 0.0049 0.001 0.0004 0.0127 0.0019 0.002 0.0015 0.002 0.0042 0.0026 0.0019
Bud 0.0013 0.0004 0.0006 0.0007 0.0002 0.0004 0.0004 0.0006 0.0005 0.0006 0.0006 0.0002 0.0004 0.0024 0.0008 0.0015 0.0004 0.0009
Bud Neck 0.0004 0.0003 0.0008 0.0009 0.0004 0.0014 0.0007 0.0003 0.0005 0.0006 0.0008 0.0011 0.0003 0.0003 0.0005 0.0007 0.0009 0.0014
Bud Periphery 0.0008 0.0002 0.0002 0.0005 0.0001 0.0004 0.0006 0.0002 0.0002 0.0001 0.0003 0.0002 0.0003 0.0006 0.0004 0.0012 0.0001 0.0007
Bud Site 0.0009 0.0007 0.0005 0.0003 0.0001 0.0001 0.0008 0.0013 0.0003 0.0002 0.0004 0.0001 0.0005 0.0022 0.0005 0.0006 0.0004 0.0001
Cell Periphery 0.0006 0.0004 0.0003 0.0005 0.0001 0.0003 0.0006 0.0003 0.0004 0.0001 0.0001 0.0002 0.0004 0.0004 0.0004 0.0005 0.0001 0.0003
Cytoplasm 0.7781 0.8804 0.8491 0.7042 0.8196 0.8168 0.7505 0.9133 0.9001 0.9211 0.8572 0.852 0.7892 0.9313 0.8118 0.7444 0.8368 0.7752
Cytoplasmic Foci 0.0157 0.0093 0.0122 0.0155 0.0251 0.0168 0.019 0.0092 0.0138 0.0098 0.0224 0.0122 0.0181 0.0103 0.015 0.0271 0.0193 0.0167
Eisosomes 0 0 0 0 0 0 0.0001 0 0 0 0.0001 0 0.0001 0 0.0001 0 0 0
Endoplasmic Reticulum 0.0953 0.0505 0.0754 0.1263 0.0172 0.0659 0.0974 0.039 0.0224 0.0179 0.0125 0.0592 0.1031 0.0244 0.073 0.049 0.0689 0.0847
Endosome 0.0544 0.0304 0.0357 0.106 0.106 0.0528 0.061 0.0177 0.0394 0.0304 0.0426 0.0431 0.0476 0.0167 0.0489 0.112 0.0476 0.0565
Golgi 0.013 0.0065 0.0048 0.0137 0.0181 0.0124 0.0106 0.004 0.0061 0.0019 0.0085 0.0102 0.0123 0.0044 0.009 0.0212 0.006 0.0161
Lipid Particles 0.0034 0.0003 0.0001 0.0003 0.0001 0.0001 0.0037 0.0006 0.0001 0 0.0149 0.0007 0.0012 0.0001 0.0005 0.0004 0.0001 0.0001
Mitochondria 0.0072 0.0102 0.0036 0.004 0.0022 0.0239 0.0049 0.0019 0.0022 0.0011 0.0035 0.0096 0.0044 0.0009 0.0232 0.0182 0.0023 0.0372
None 0.0016 0.0006 0.0007 0.0006 0.0005 0.0008 0.005 0.0006 0.0005 0.0006 0.0019 0.0007 0.0071 0.0007 0.001 0.0008 0.0005 0.0011
Nuclear Periphery 0.0045 0.0017 0.003 0.0033 0.0016 0.0012 0.0109 0.0012 0.0014 0.0017 0.0036 0.0013 0.0034 0.0009 0.0024 0.0042 0.0025 0.0014
Nucleolus 0 0 0 0 0 0 0.0001 0 0 0 0.0002 0.0001 0 0 0.0001 0 0 0
Nucleus 0.0016 0.0008 0.0013 0.0011 0.0008 0.0007 0.0027 0.0008 0.0009 0.0013 0.0012 0.0009 0.001 0.0007 0.001 0.0012 0.001 0.0009
Peroxisomes 0.0005 0.0001 0.0001 0.0001 0.0001 0.0001 0.0014 0.0001 0.0001 0.0001 0.0037 0.0002 0.0003 0.0001 0.0002 0.0002 0.0002 0.0001
Punctate Nuclear 0.0002 0.0001 0.0001 0.0001 0.0001 0 0.0012 0.0001 0.0001 0.0001 0.0043 0.0002 0.0004 0.0001 0.0001 0.0002 0.0001 0.0002
Vacuole 0.012 0.004 0.0077 0.0155 0.0048 0.003 0.0111 0.0034 0.0084 0.0091 0.0063 0.0039 0.0064 0.0018 0.0072 0.008 0.0081 0.003
Vacuole Periphery 0.0022 0.0013 0.0023 0.0053 0.0025 0.0019 0.0029 0.0007 0.0015 0.0029 0.0023 0.0018 0.0017 0.0004 0.002 0.0044 0.0021 0.0017

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 90.3559 70.3197 46.5391 78.6937 86.8291 99.8676 93.6793 94.6787 80.5638 94.606
Translational Efficiency 1.4391 2.0816 2.6599 1.9006 1.6051 1.6467 1.532 1.7627 1.8596 1.5718

Hit Data

Dataset Hit
Protein Concentration ✘
Protein Localization ✘
Gene Expression ✘
Translational Efficiency ✔
Standard name
Human Ortholog
Description Lsm (Like Sm) protein; forms heteroheptameric complex (with Lsm2p, Lsm3p, Lsm4p, Lsm5p, Lsm6p, and Lsm7p) involved in degradation of cytoplasmic mRNAs; also enters the nucleus and positively regulates transcription initiation; unlike most Sm-like proteins, Lsm1p requires both its SM-domain and C-terminal domain for RNA-binding; binds to mRNAs under glucose starvation, most often in the 3' UTR; forms cytoplasmic foci upon DNA replication stress
Localization
Cell Percentages cytoplasm (97%)
Cell Cycle Regulation No
Subcompartmental Group cytoplasm-5

Lsm1

Lsm1


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 (Lsm1-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