Standard name
Human Ortholog
Description Cytosolic serine hydroxymethyltransferase; converts serine to glycine plus 5,10 methylenetetrahydrofolate; major isoform involved in generating precursors for purine, pyrimidine, amino acid, and lipid biosynthesis
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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 0.06 0.08 0.06 0.06 0.07 0.05
Bud 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.07
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 0.07 0 0.06 0 0.05 0 0 0 0 0 0 0 0 0
Cytoplasm 0.75 0.74 0.71 0.9 0.94 0.91 0.9 0.9 0.97 0.9 0.93 0.93 0.87 0.9 0.91 0.66 0.83 0.87 0.55 0.53 0.47 0.43 0.18 0.05
Endoplasmic Reticulum 0 0 0 0 0 0 0.07 0.07 0 0.07 0 0 0 0 0 0.1 0.05 0.1 0 0 0 0 0 0.05
Endosome 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.06 0.09 0.07 0.06 0.16 0.25
Golgi 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.05 0 0 0 0 0 0 0.08 0.07
Mitochondria 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.05 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 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 0
Nucleolus 0.22 0.26 0.23 0 0 0.05 0 0 0 0 0 0 0.08 0.05 0.06 0.22 0.09 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 0.05 0 0.08 0.09 0.12 0.11
SpindlePole 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.09 0.07 0.12 0.06 0.12 0.09
Vac/Vac Membrane 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.05 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 0 0 0 0 0 0 0 0 2 1 1 0 0 0 0 1 0 0 15 8 5 6 12 9
Bud 5 0 0 0 0 1 2 2 0 0 1 1 2 0 0 0 0 0 7 2 4 4 3 12
Bud Neck 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 1 0 1 0 6
Bud Site 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 – – – – – –
Cell Periphery 1 0 0 1 0 1 3 5 3 3 8 6 10 4 7 4 0 2 0 0 0 0 0 0
Cytoplasm 160 50 49 95 91 113 152 181 142 139 112 135 139 149 130 133 98 55 134 59 49 41 33 10
Endoplasmic Reticulum 1 1 3 4 4 1 11 15 1 11 5 6 1 2 0 20 6 6 6 1 3 4 8 9
Endosome 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 9 7 5 29 47
Golgi 1 0 1 1 1 4 1 1 0 1 1 1 1 4 2 11 2 1 2 1 1 1 13 14
Mitochondria 0 0 1 0 0 0 1 0 1 0 0 2 0 0 0 1 0 3 0 0 0 0 1 2
Nucleus 1 0 0 0 0 0 0 0 0 1 0 0 0 1 0 1 0 0 0 2 1 0 2 1
Nuclear Periphery 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 2 3
Nucleolus 47 18 16 4 2 6 2 1 2 1 0 2 13 8 8 45 11 2 1 0 0 1 5 8
Peroxisomes 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 11 4 8 9 21 22
SpindlePole 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 22 8 12 6 21 16
Vac/Vac Membrane 1 0 0 2 0 0 0 1 0 0 0 0 1 0 0 0 3 1 0 5 0 3 6 5
Unique Cell Count 212 68 69 106 97 124 168 201 147 154 120 145 160 165 143 202 118 63 244 112 106 97 185 195
Labelled Cell Count 217 71 70 107 98 126 172 206 151 157 128 153 167 168 147 216 121 70 244 112 106 97 185 195


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) 195.8 192.8 140.7 149.2 128.4 109.0 86.9 85.5 75.5 75.4 77.5 78.0 336.0 326.4 317.1 169.4 227.9 245.0 181.1 192.4 188.3
Std Deviation (1e-4) 40.2 48.8 38.8 39.0 40.4 34.1 28.5 23.1 22.1 23.1 18.1 22.8 76.6 78.4 71.3 57.0 65.7 78.3 64.2 52.4 70.6
Intensity Change (Log2) – – – 0.08 -0.13 -0.37 -0.7 -0.72 -0.9 -0.9 -0.86 -0.85 1.26 1.21 1.17 0.27 0.7 0.8 0.36 0.45 0.42


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 3.2 4.0 3.6 3.8 3.8 5.5 3.7 4.2 4.4 2.9 3.7 3.7 -0.8 1.9 2.3
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 0 0 0 1.4 0 0
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 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
Nuclear Periphery 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Nucleolus -3.9 -4.3 -3.8 -5.8 0 -5.4 -5.9 -5.5 -5.4 -3.1 -4.2 -3.8 -0.2 -2.6 -3.3
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 0 0 0 0 0 0 0 0 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 – – – – – – – – – – – – – – – – – –
Actin 0.0224 0.0009 0.0161 0.0005 0.001 0.0004 – – – – – – 0.009 0.0005 0.0086 0.0068 0.0002 0.0141
Bud 0.0016 0.0005 0.0006 0.0007 0.0004 0.0005 – – – – – – 0.0008 0.0001 0.0001 0.0002 0.0001 0.0006
Bud Neck 0.0011 0.0003 0.0041 0.0004 0.0007 0.0009 – – – – – – 0.0005 0.0002 0.0007 0.0002 0.0002 0.0005
Bud Periphery 0.0013 0.0002 0.0006 0.0001 0.0002 0.0001 – – – – – – 0.0006 0 0.0001 0.0002 0 0.0013
Bud Site 0.0028 0.0004 0.0004 0 0.0009 0.0001 – – – – – – 0.0027 0 0.0002 0.0005 0 0.0009
Cell Periphery 0.0025 0.0011 0.0008 0.0001 0.0004 0.0007 – – – – – – 0.0013 0.0001 0 0.0003 0 0.0003
Cytoplasm 0.8032 0.9706 0.9436 0.9755 0.7991 0.9679 – – – – – – 0.8584 0.9844 0.9617 0.7714 0.9888 0.8452
Cytoplasmic Foci 0.0176 0.0026 0.0024 0.0002 0.0307 0.0005 – – – – – – 0.0136 0.0029 0.001 0.0494 0.0001 0.0012
Eisosomes 0.0007 0.0003 0.0034 0 0.0006 0 – – – – – – 0.001 0 0 0.0006 0 0.0006
Endoplasmic Reticulum 0.0027 0.0001 0.0006 0.0001 0.0006 0.0002 – – – – – – 0.0042 0.0001 0.0003 0.001 0 0.0093
Endosome 0.0088 0 0.0008 0.0001 0.0026 0.0001 – – – – – – 0.0034 0 0.0028 0.0121 0 0.029
Golgi 0.004 0 0.0024 0 0.0012 0 – – – – – – 0.0013 0 0.0039 0.0059 0 0.0084
Lipid Particles 0.0064 0.0003 0.0006 0 0.026 0.0001 – – – – – – 0.0059 0 0.0007 0.0282 0 0.0011
Mitochondria 0.012 0.0065 0.0094 0.0016 0.0357 0.0004 – – – – – – 0.0123 0.0003 0.0015 0.0253 0.0002 0.0554
None 0.0131 0.0014 0.0038 0.0003 0.0097 0.0007 – – – – – – 0.0271 0.0007 0.0004 0.0067 0.0002 0.0019
Nuclear Periphery 0.0193 0.0015 0.0022 0.0032 0.0055 0.0047 – – – – – – 0.0129 0.0012 0.0036 0.0037 0.0008 0.0098
Nucleolus 0.0179 0.0055 0.0004 0.0002 0.0529 0.0017 – – – – – – 0.016 0.0001 0.0001 0.0582 0 0.0004
Nucleus 0.0457 0.0058 0.0062 0.0139 0.0173 0.0169 – – – – – – 0.0218 0.0037 0.0132 0.0093 0.0092 0.0147
Peroxisomes 0.0028 0.0005 0.0004 0.0001 0.0041 0 – – – – – – 0.001 0 0.0004 0.0068 0 0.0003
Punctate Nuclear 0.0053 0.0001 0.0002 0.0001 0.0035 0.0003 – – – – – – 0.0031 0.0056 0.0003 0.0104 0.0001 0.0005
Vacuole 0.0055 0.001 0.0007 0.0012 0.0027 0.0025 – – – – – – 0.0018 0.0001 0.0001 0.0009 0 0.0019
Vacuole Periphery 0.0033 0.0006 0.0004 0.0016 0.0042 0.0014 – – – – – – 0.0011 0 0.0001 0.0018 0 0.0028

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 546.6156 202.8717 117.8361 147.5718 118.2031 471.6202 206.7148 204.8023 244.7106 242.846
Translational Efficiency 1.5646 1.6596 1.6631 1.5816 1.6855 2.0651 1.8191 1.8299 1.8814 1.8436

Hit Data

Dataset Hit
Protein Concentration –
Protein Localization ✘
Gene Expression ✘
Translational Efficiency ✘

Micrographs

Cell Count

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
2547 637 244 1166 300 1792 189 2088 2847 2429 433 3254

Protein Abundance

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
Mean 11271.67 14124.82 10701.22 13338.70 17182.38 13833.36 12679.42 12349.98 11894.51 13909.79 11564.68 12704.27
Standard Deviation 2819.61 3841.55 2258.81 3230.00 3157.88 3231.45 2377.58 3412.96 3384.78 3404.46 2511.00 3381.95
Intensity Change Log 2 — 0.325531 -0.074926 0.242917 — -0.312778 -0.438441 -0.476421 — -0.025364 -0.283320 -0.147501

Localization Score (DeepLoc)

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
Actin 0.000175 0.000289 0.000435 0.000289 0.000239 0.000251 0.000165 0.000178 0.000181 0.000261 0.000317 0.000218
Bud Neck 0.032821 0.008221 0.010551 0.004986 0.030240 0.006645 0.005389 0.004462 0.032549 0.007058 0.008298 0.004650
Bud Site 0.197736* 0.082641 0.024466 0.045506 0.105266* 0.048026 0.019313 0.034379 0.187992* 0.057104 0.022217 0.038366
Cell Periphery 0.001046 0.001924 0.002158 0.001471 0.002693 0.001072 0.002272 0.000705 0.001219 0.001295 0.002208 0.000980
Cytoplasm 0.344591* 0.414379* 0.053887 0.661308* 0.102789* 0.477094* 0.302992* 0.719040* 0.319111* 0.460647* 0.162619* 0.698353*
Cytoplasmic Foci 0.350649* 0.374986* 0.794676* 0.126898 0.568026* 0.361286* 0.409093* 0.065608 0.373555* 0.364879* 0.626373* 0.087570
Eisosomes 0.000014 0.000007 0.000013 0.000004 0.000022 0.000004 0.000007 0.000003 0.000015 0.000005 0.000011 0.000003
Endoplasmic Reticulum 0.000099 0.000029 0.000023 0.000039 0.000101 0.000028 0.000013 0.000051 0.000099 0.000028 0.000019 0.000047
Endosome 0.004647 0.000861 0.000790 0.000854 0.003009 0.001476 0.000200 0.000905 0.004474 0.001315 0.000532 0.000887
Golgi 0.004978 0.002945 0.005515 0.001459 0.010218 0.002811 0.001555 0.001571 0.005530 0.002846 0.003787 0.001531
Lipid Particles 0.000709 0.001971 0.005410 0.002580 0.002528 0.001560 0.002803 0.001431 0.000901 0.001668 0.004272 0.001843
Mitochondria 0.000654 0.000301 0.000214 0.000553 0.000857 0.000351 0.000192 0.000413 0.000676 0.000338 0.000204 0.000463
Mitotic Spindle 0.008354 0.006631 0.009085 0.010990 0.004434 0.020479 0.007403 0.027615 0.007941 0.016848 0.008351 0.021658
None 0.004255 0.007044 0.000867 0.010286 0.001969 0.005462 0.003547 0.014747 0.004014 0.005877 0.002037 0.013149
Nuclear Periphery 0.000084 0.000171 0.001762 0.000281 0.000527 0.000220 0.000746 0.000222 0.000131 0.000207 0.001319 0.000243
Nuclear Periphery Foci 0.000916 0.001361 0.003370 0.001244 0.002411 0.001540 0.001207 0.001317 0.001074 0.001493 0.002426 0.001291
Nucleolus 0.002232 0.000863 0.000367 0.000267 0.005001 0.000665 0.000175 0.000516 0.002524 0.000717 0.000283 0.000427
Nucleus 0.021220 0.074383 0.045973 0.100632 0.047981 0.058615 0.210786* 0.081783 0.024040 0.062750 0.117912 0.088538
Peroxisomes 0.002396 0.001448 0.001037 0.000569 0.001209 0.001186 0.000432 0.000586 0.002271 0.001255 0.000773 0.000580
Vacuole 0.017714 0.017670 0.035212 0.027750 0.081662 0.010230 0.031142 0.043046 0.024453 0.012181 0.033436 0.037565
Vacuole Periphery 0.004711 0.001875 0.004188 0.002032 0.028818 0.001000 0.000567 0.001420 0.007251 0.001229 0.002608 0.001639

Localization Changes (T-score)

R1 R2 R1 & R2
UBP2_WT UBP14_WT UBP2UBP14_WT UBP2UBP14_UBP2 UBP2UBP14_UBP14 UBP2_WT UBP14_WT UBP2UBP14_WT UBP2UBP14_UBP2 UBP2UBP14_UBP14 UBP2_WT UBP14_WT UBP2UBP14_WT UBP2UBP14_UBP2 UBP2UBP14_UBP14
Actin -3.01 -2.96 -2.73 0.30 1.41 -1.32 0.64 3.98 4.87 1.76 -4.27 -2.93 -0.75 3.64 2.60
Bud Neck 13.95 7.68 17.10 2.14 5.11 8.18 7.67 8.26 0.58 1.30 18.73 12.30 19.50 1.60 5.26
Bud Site 15.02 28.60* 28.17* 5.83 -2.63 5.22 8.19 7.13 6.36 -3.62 26.10 32.75 32.73 8.23 -3.63
Cell Periphery -3.64 -4.66 -3.16 1.70 3.59 3.26 -0.53 4.46 3.86 5.11 -0.93 -5.62 2.70 3.34 6.59
Cytoplasm -3.80 22.05 -20.50 -10.69 -37.43 -24.33 -7.48 -40.09 -16.84 -17.95 -12.48 12.12 -35.25 -19.34 -36.95
Cytoplasmic Foci -1.37 -12.84 19.55 13.54 21.10 8.12 4.35 22.48 29.85 11.42 0.46 -8.65 35.16 31.36 23.09
Eisosomes 3.41 -0.88 6.16 1.50 5.78 7.75 3.79 8.18 1.16 3.67 7.61 0.61 8.92 1.48 7.07
Endoplasmic Reticulum 7.08 5.35 6.72 -0.10 1.48 4.01 4.79 3.78 -0.90 -4.72 7.91 7.65 7.52 -0.76 -0.68
Endosome 7.44 7.71 8.51 1.88 2.27 3.77 7.12 5.61 2.53 -4.62 7.12 8.95 8.77 3.18 -0.70
Golgi 5.28 0.33 12.08 6.91 2.72 6.36 7.19 8.05 5.89 2.12 7.74 2.86 15.04 7.83 3.13
Lipid Particles -3.41 -5.88 -7.85 -3.40 2.52 0.99 -2.30 -0.39 -3.36 2.51 -4.39 -7.19 -9.10 -5.14 3.92
Mitochondria 3.83 2.63 1.98 -0.88 -0.26 3.42 4.00 4.14 2.71 0.29 3.90 4.28 4.65 1.34 0.35
Mitotic Spindle -0.19 -2.28 -3.52 -2.56 0.95 -8.40 -3.31 -11.21 -4.36 -4.52 -6.61 -3.13 -10.61 -4.37 -2.36
None -2.55 10.26 -1.66 0.31 -4.58 -7.22 -1.70 -4.81 -1.42 -3.53 -3.99 6.32 -3.36 -1.11 -6.01
Nuclear Periphery -7.57 -3.80 -13.34 -8.84 3.11 3.45 -3.93 1.74 -5.52 5.67 -5.38 -5.20 -14.11 -8.65 4.26
Nuclear Periphery Foci -2.40 -4.37 -4.07 -0.58 3.06 0.83 0.22 0.75 -0.26 1.08 -2.89 -4.79 -3.48 -0.47 3.18
Nucleolus 4.40 6.88 7.94 3.33 2.32 5.18 5.72 5.47 1.50 -2.96 7.03 8.92 8.99 3.01 -0.28
Nucleus -10.64 -5.63 -22.13 -6.98 -2.23 -0.81 -7.55 -5.10 -8.58 5.66 -15.11 -10.69 -28.60 -11.56 2.75
Peroxisomes 3.28 8.13 14.94 2.15 4.02 0.33 4.53 3.77 6.05 -1.88 7.55 11.54 15.34 5.40 2.72
Vacuole -2.38 -6.12 -13.76 -10.22 -0.57 8.71 1.69 -0.67 -22.41 -2.88 5.12 -6.86 -20.03 -25.05 -3.31
Vacuole Periphery 4.97 1.48 5.42 1.53 1.43 7.13 7.24 7.16 0.53 -1.51 9.72 5.72 9.92 1.27 1.35
Standard name
Human Ortholog
Description Cytosolic serine hydroxymethyltransferase; converts serine to glycine plus 5,10 methylenetetrahydrofolate; major isoform involved in generating precursors for purine, pyrimidine, amino acid, and lipid biosynthesis
Localization
Cell Percentages cytoplasm (97%)
Cell Cycle Regulation No
Subcompartmental Group cytoplasm-1

Shm2

Shm2


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 (Shm2-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