Standard name
Human Ortholog
Description Mitochondrial serine hydroxymethyltransferase; converts serine to glycine plus 5,10 methylenetetrahydrofolate; involved in generating precursors for purine, pyrimidine, amino acid, and lipid biosynthesis; reverse reaction generates serine
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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 0.05 0.14 0 0 0 0.05 0.05 0
Bud 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0.05 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 0 0 0 0 0 0 0 0.06 0 0 0 0 0 0
Cytoplasm 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0.06 0 0.08 0 0 0 0 0 0
Endoplasmic Reticulum 0 0 0 0 0 0 0 – 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 0.05
Golgi 0 0.1 0.41 0.14 0.3 0.05 0.05 – 0 0 0 0 0.23 0.35 0.48 0.42 0.44 0.31 0 0.11 0 0.16 0.18 0.21
Mitochondria 0.9 0.85 0.57 0.89 0.74 0.82 0.79 – 0.82 0.87 0.91 0.86 0.85 0.79 0.7 0.2 0.15 0.1 0.79 0.73 0.8 0.64 0.57 0.52
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 0.08 0.08 – 0.09 0.06 0 0.05 0 0 0 0.05 0 0 0 0 0 0 0 0
Nucleolus 0.08 0.05 0.09 0 0.07 0.14 0.18 – 0.16 0.11 0.12 0.12 0 0 0 0.15 0.13 0.09 0 0 0 0 0 0
Peroxisomes 0.07 0 0.05 0.05 0 0 0 – 0 0 0 0 0 0.05 0.07 0.07 0.07 0.11 0.06 0 0.07 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 0.05 0.1 0.18 0 0.1 0.07 0 – 0.06 0.05 0 0 0.15 0.08 0.07 0.13 0.17 0.23 0 0 0 0.05 0.08 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 2 1 6 5 2 6 – 1 3 0 1 5 5 2 3 4 12 8 9 4 3 6 3
Bud 5 3 2 1 4 3 4 – 4 4 10 4 1 0 0 1 2 4 1 0 1 0 0 1
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 1 0 0 0 0 0 0 – 0 0 1 0 0 0 0 0 0 3 – – – – – –
Cell Periphery 2 3 4 7 2 1 1 – 3 2 1 2 5 3 5 2 3 5 0 1 0 0 0 0
Cytoplasm 1 1 0 3 10 3 13 – 4 4 8 6 2 8 4 5 3 7 0 0 0 0 0 0
Endoplasmic Reticulum 0 2 0 0 1 2 0 – 3 2 0 4 0 0 0 2 1 0 0 0 0 0 0 0
Endosome 4 1 5 3 4 7 5 – 5 5 1 1 0 2 2 1 2 1 6 6 5 0 5 6
Golgi 2 19 66 26 78 20 24 – 13 19 4 20 38 77 113 36 38 27 13 26 8 10 24 27
Mitochondria 258 161 91 166 193 330 366 – 288 388 364 471 140 173 164 17 13 9 238 172 165 44 79 69
Nucleus 0 0 1 0 2 0 2 – 1 2 0 1 0 1 0 1 0 1 0 0 0 0 1 0
Nuclear Periphery 11 2 4 1 5 32 35 – 30 29 14 26 5 1 5 4 1 1 3 1 1 0 1 0
Nucleolus 24 9 14 5 19 57 84 – 57 47 48 64 5 6 3 13 11 8 0 2 0 1 1 0
Peroxisomes 20 7 8 10 9 4 9 – 1 11 6 5 3 10 16 6 6 10 18 6 14 0 3 3
SpindlePole 2 1 3 0 1 1 0 – 4 1 1 6 0 1 2 2 0 1 2 1 1 0 0 2
Vac/Vac Membrane 14 18 29 5 25 29 14 – 20 22 6 21 24 17 17 11 15 20 4 5 1 3 10 14
Unique Cell Count 286 189 160 187 262 404 465 352 447 402 547 164 220 233 86 86 88 300 238 208 69 139 132
Labelled Cell Count 344 229 228 233 358 491 563 434 539 464 632 228 304 333 104 99 109 300 238 208 69 139 132


Mitochondria

(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) 13.2 18.5 16.7 17.8 19.9 18.6 18.9 – 17.7 17.5 16.7 17.1 18.9 19.1 18.1 21.8 23.9 22.0 13.8 18.7 19.7
Std Deviation (1e-4) 3.4 4.5 3.5 4.1 5.2 4.4 5.0 – 4.9 5.0 5.3 5.1 5.2 4.3 3.8 6.1 7.6 6.8 3.8 5.5 6.4
Intensity Change (Log2) – – – 0.09 0.25 0.16 0.18 – 0.08 0.07 0.0 0.04 0.18 0.19 0.12 0.39 0.52 0.4 -0.27 0.17 0.24


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
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 0.7 0 0 0 – 0 0 0 0 0 0 0 0 0 0
Cytoplasm 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0
Endoplasmic Reticulum 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
Golgi -5.8 -2.4 -10.8 -11.2 – -10.9 -11.6 -13.0 -12.8 -3.5 -1.2 1.4 0.1 0.4 -1.6
Mitochondria 6.8 3.6 6.1 5.4 – 6.0 8.0 9.2 8.1 5.7 4.5 2.8 -5.6 -6.3 -7.2
Nucleus 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0
Nuclear Periphery 0 0 2.4 2.3 – 2.5 1.9 0.6 1.2 0 0 0 0 0 0
Nucleolus -2.5 -0.6 1.7 2.8 – 2.3 0.6 1.1 1.0 -2.2 -2.6 -3.6 1.5 1.0 0.1
Peroxisomes 0.1 -0.8 0 0 – 0 -1.6 0 0 -1.6 -0.2 0.8 0 0 1.8
SpindlePole 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0
Vacuole -4.8 -2.6 -3.9 -6.5 – -4.4 -5.2 -7.4 -6.2 -0.8 -3.1 -3.3 -1.1 -0.1 0.9

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 24.0747 24.7297 24.2742 22.6459 18.7563 24.2827 21.7509 23.9929 22.2718 18.6888 20.5748 23.8177 23.7742 26.5395 24.2529 25.2641 23.6177 27.2965
Actin 0.0025 0.0074 0.003 0 0.016 0.0002 0.0177 0.0126 0.003 0.0011 0.001 0.0027 0.039 0.0104 0.0214 0.0002 0.001 0.0003
Bud 0.0001 0 0.0001 0 0.0001 0 0.0001 0 0 0 0.0004 0 0.0003 0 0.0002 0.0001 0.0002 0
Bud Neck 0 0 0.0001 0 0.0001 0 0.0001 0.0001 0 0 0.0002 0 0.001 0 0.0004 0 0 0
Bud Periphery 0.0001 0.0001 0.0003 0 0.0001 0 0.0003 0.0001 0.0001 0.0001 0.0006 0 0.0005 0.0001 0.0003 0.0003 0.0002 0
Bud Site 0.0004 0.0001 0.0015 0 0.0001 0 0.0003 0.0003 0.0004 0.0001 0.0049 0 0.0013 0.0001 0.0021 0 0.0004 0
Cell Periphery 0.0003 0.0001 0.0003 0 0.0001 0 0.0001 0.0001 0.0001 0.0001 0.0001 0 0.0005 0.0002 0.0002 0.0002 0.0001 0
Cytoplasm 0.0002 0 0 0 0 0 0 0 0 0 0 0 0.0014 0 0.0004 0 0.0003 0
Cytoplasmic Foci 0.0077 0.0007 0.001 0 0.0057 0.003 0.0016 0.001 0.0046 0.0012 0.0028 0.0001 0.0147 0.0004 0.0113 0.0001 0.0112 0
Eisosomes 0.0004 0.0003 0.0006 0.0001 0.0005 0.0002 0.0006 0.0002 0.0003 0.0001 0.0002 0.0005 0.0015 0.0004 0.0004 0.0001 0.0002 0.0002
Endoplasmic Reticulum 0.0001 0 0 0 0 0 0.0001 0 0 0.0001 0 0 0.0013 0 0.0005 0 0.0003 0
Endosome 0.0018 0.0014 0.0013 0 0.0007 0.0004 0.0011 0.0001 0.0004 0.0083 0.0004 0.0003 0.0113 0.001 0.0097 0.0003 0.021 0.0002
Golgi 0.0019 0.012 0.0066 0.0001 0.0022 0.0066 0.0032 0.0007 0.0014 0.0193 0.0008 0.0039 0.0067 0.003 0.0044 0.0008 0.0061 0.0017
Lipid Particles 0.0152 0.0093 0.0031 0.0025 0.0192 0.0037 0.0136 0.0077 0.0106 0.0314 0.0066 0.0033 0.0358 0.01 0.017 0.0062 0.0333 0.0022
Mitochondria 0.942 0.9515 0.9659 0.9932 0.9433 0.9829 0.9439 0.9675 0.9703 0.9249 0.9571 0.9865 0.8193 0.9612 0.9143 0.9764 0.9008 0.9833
None 0.0003 0 0 0 0 0 0.0001 0 0 0.0001 0.0002 0 0.0078 0 0.0003 0 0.0006 0
Nuclear Periphery 0.0005 0.0001 0 0 0 0 0.0001 0 0 0.0005 0.0001 0.0001 0.0025 0 0.0008 0 0.0012 0.0001
Nucleolus 0.0048 0.0001 0.0001 0 0.0001 0.0006 0.0003 0.0009 0.0002 0.0003 0.0132 0 0.0176 0.0001 0.0007 0.0001 0.0007 0.0001
Nucleus 0.0004 0 0 0 0 0 0.0001 0 0.0001 0.0002 0.0016 0 0.0014 0 0.0003 0.0001 0.0003 0
Peroxisomes 0.0117 0.0041 0.0092 0.0004 0.0105 0.0003 0.0122 0.0065 0.0058 0.0009 0.0071 0.001 0.0128 0.0036 0.0089 0.0008 0.0062 0.0004
Punctate Nuclear 0.0017 0 0 0 0.0002 0 0.0001 0 0.0005 0.0001 0.0017 0 0.0041 0 0.0011 0 0.0026 0
Vacuole 0.0018 0.0006 0.001 0.0002 0.0002 0.0002 0.0006 0.0002 0.0003 0.0015 0.0003 0.0001 0.0029 0.0013 0.0017 0.0033 0.0013 0.0003
Vacuole Periphery 0.0061 0.0121 0.0059 0.0032 0.0011 0.0019 0.0037 0.002 0.0017 0.0098 0.0006 0.0014 0.0166 0.0081 0.0036 0.0109 0.0118 0.0113

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 216.8605 235.7124 194.2879 221.4804 231.6368 193.1573 210.738 204.04 192.5002 195.0637
Translational Efficiency 1.0888 1.0644 1.3181 1.045 1.0279 1.096 1.0289 1.0193 1.1059 1.0497

Hit Data

Dataset Hit
Protein Concentration ✘
Protein Localization ✘
Gene Expression ✘
Translational Efficiency ✔
Standard name
Human Ortholog
Description Mitochondrial serine hydroxymethyltransferase; converts serine to glycine plus 5,10 methylenetetrahydrofolate; involved in generating precursors for purine, pyrimidine, amino acid, and lipid biosynthesis; reverse reaction generates serine
Localization
Cell Percentages mitochondrion (96%)
Cell Cycle Regulation No
Subcompartmental Group mito-3

Shm1

Shm1


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 (Shm1-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