Standard name
Human Ortholog
Description tRNA methyltransferase; two forms of protein are made by alternative translation starts; localizes to both nucleus and mitochondrion to produce modified base N2,N2-dimethylguanosine in tRNAs in both compartments; nuclear Trm1p is evenly distributed around inner nuclear membrane in WT, but mislocalizes as puncta near ER-nucleus junctions in spindle pole body (SPB) mutants; both Trm1p inner nuclear membrane targeting and maintenance depend upon SPB
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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 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 0 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 0.1 0.1 0.16 0.08 0.06 0.11 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
Golgi 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Mitochondria 0 0 0 0 0 0 0 – 0.08 0 0.11 0.06 0 0 0 0 0 0 0 0 0 0 0 0
Nucleus 0.89 0.91 0.9 0.8 0.66 0.73 0.71 – 0.66 0.64 0.64 0.64 0.63 0.55 0.42 0.61 0.65 0.64 0.48 0.8 0.75 0.68 0.72 0.55
Nuclear Periphery 0.42 0 0.08 0.48 0.42 0.34 0.27 – 0.34 0.35 0.31 0.3 0.35 0.46 0.52 0.18 0.13 0.17 0.34 0 0.11 0.06 0 0.07
Nucleolus 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0 0.08 0.05 0.07 0.05 0 0.05
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 0.07 0.12 0.11 0.06 0.13 0.11 0.14 – 0.13 0.16 0.15 0.18 0.1 0.1 0.16 0.23 0.25 0.18 0.08 0.09 0.05 0.17 0.18 0.29
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 0 0 0 0
Bud 0 0 0 0 0 0 1 – 2 1 0 1 0 0 0 0 0 0 1 1 1 0 1 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 – 1 1 1 3 0 0 1 0 0 0 – – – – – –
Cell Periphery 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 1 2 0 0 0 0 0 0
Cytoplasm 2 2 6 12 14 18 19 – 12 21 13 8 10 16 22 13 7 17 0 0 0 0 0 0
Endoplasmic Reticulum 0 0 0 0 0 0 1 – 1 0 0 0 0 0 0 2 1 7 0 0 1 0 0 0
Endosome 0 1 0 0 1 0 1 – 0 2 0 0 0 1 0 0 0 0 1 0 1 0 0 0
Golgi 0 0 0 0 0 0 0 – 0 0 0 0 0 0 1 0 0 2 0 1 0 0 0 0
Mitochondria 1 1 1 1 1 2 7 – 34 18 44 34 0 0 0 5 0 1 1 0 1 0 0 0
Nucleus 272 154 330 298 239 424 386 – 293 314 260 389 64 90 58 94 82 103 154 143 297 21 86 66
Nuclear Periphery 128 2 29 179 154 199 147 – 153 170 126 183 35 76 72 27 16 28 106 4 42 1 4 8
Nucleolus 0 0 0 0 0 3 4 – 7 3 5 6 1 2 3 1 2 3 26 8 27 1 3 5
Peroxisomes 0 0 0 0 0 0 0 – 0 0 0 0 1 0 3 0 1 0 0 0 0 0 0 0
SpindlePole 0 0 0 0 0 0 0 – 1 0 0 1 1 1 2 0 0 0 0 0 0 0 0 0
Vac/Vac Membrane 20 21 40 22 49 65 76 – 59 76 63 109 10 17 22 35 32 29 26 16 21 5 21 35
Unique Cell Count 307 169 368 372 363 577 540 447 489 409 605 101 164 139 154 127 160 318 180 399 31 120 122
Labelled Cell Count 423 181 406 512 458 711 642 563 606 512 734 122 203 184 177 142 192 318 180 399 31 120 122


Nuclear Periphery, 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) 10.2 13.7 11.5 10.7 10.1 8.4 7.8 – 6.9 7.1 6.3 6.7 12.7 11.3 11.3 26.0 26.4 27.1 – 11.0 12.1
Std Deviation (1e-4) 2.1 3.1 2.3 2.2 2.0 1.8 1.5 – 1.4 1.6 1.6 1.3 3.0 2.7 3.3 9.8 8.9 9.9 – 2.5 2.3
Intensity Change (Log2) – – – -0.11 -0.19 -0.46 -0.56 – -0.74 -0.7 -0.88 -0.78 0.13 -0.03 -0.03 1.17 1.19 1.23 – -0.07 0.07


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 0 0 0 – 0 0 0 0 0 0 0 0 0 0
Cytoplasm 1.4 1.8 1.4 1.7 – 1.0 2.2 1.4 -0.4 0 4.3 6.2 3.8 0 4.7
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 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0
Mitochondria 0 0 0 0 – 5.1 3.4 6.2 4.3 0 0 0 0 0 0
Nucleus -3.6 -7.8 -6.0 -6.6 – -8.1 -8.5 -8.5 -8.7 -6.4 -9.1 -11.4 -7.6 -6.5 -7.0
Nuclear Periphery 12.2 10.8 9.3 7.2 – 9.0 9.2 8.0 8.2 6.9 10.3 11.0 3.2 1.6 3.3
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 -2.4 1.1 0.2 1.4 – 1.0 2.0 1.9 3.0 -0.3 -0.2 1.5 3.5 3.9 2.3

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 11.7332 9.4783 9.8124 8.7666 8.6945 9.5258 9.9186 9.3438 9.3012 8.0013 7.8213 9.1458 10.3682 12.5976 10.6453 9.3293 9.6343 10.9845
Actin 0.0023 0 0 0.0001 0.0002 0.0001 0.0055 0.0001 0.0016 0.0001 0.0042 0.0005 0.0341 0.0001 0.0014 0.0004 0.001 0.0004
Bud 0 0 0 0 0 0 0.0002 0 0 0 0.0008 0 0.0006 0 0.0001 0.0001 0.0001 0
Bud Neck 0.0015 0 0 0 0.0003 0.0002 0.0005 0 0.0001 0 0.0007 0.0002 0.0015 0 0.0001 0.0041 0.0003 0.0001
Bud Periphery 0.0001 0 0 0 0.0001 0.0001 0.0004 0 0.0001 0 0.0029 0.0001 0.0009 0 0.0002 0.0003 0.0003 0.0001
Bud Site 0.0011 0 0 0 0 0 0.0053 0 0.0002 0 0.0027 0 0.0063 0 0.0002 0.0016 0.0003 0
Cell Periphery 0.0011 0 0 0 0 0 0.0005 0 0 0 0.0011 0.0001 0.0003 0 0.0001 0.0007 0.0002 0
Cytoplasm 0.0018 0.0002 0.0001 0.0002 0.0001 0.0001 0.011 0.0001 0.0006 0.0001 0.0034 0.0008 0.0039 0.0001 0.0002 0.0001 0.0003 0.0047
Cytoplasmic Foci 0 0 0 0 0 0 0.0051 0 0.0032 0 0.0195 0.0004 0.0192 0 0.0028 0.0084 0.0156 0.0037
Eisosomes 0.0002 0 0 0 0 0 0.0001 0 0 0 0.0001 0 0.0003 0 0 0 0.0001 0
Endoplasmic Reticulum 0.0007 0.0003 0.0001 0.0001 0.0004 0.0003 0.0043 0.0002 0.0015 0.0003 0.0083 0.0007 0.005 0.0002 0.0004 0.0003 0.0012 0.0021
Endosome 0.0001 0 0 0 0.0002 0.0001 0.0136 0 0.0104 0.0002 0.046 0.003 0.0279 0 0.0116 0.006 0.0188 0.0013
Golgi 0.0001 0 0 0 0 0 0.0025 0 0.0018 0 0.0075 0.0002 0.0117 0 0.0059 0.0034 0.0146 0.0002
Lipid Particles 0 0 0 0 0 0 0.0088 0 0.0031 0.0002 0.0307 0.0011 0.0344 0 0.01 0.052 0.1703 0.0034
Mitochondria 0.0008 0.0003 0.0002 0.0003 0.0009 0.0006 0.0042 0.0005 0.0031 0.0014 0.0451 0.0019 0.0093 0.0004 0.0087 0.0059 0.0764 0.0009
None 0.0001 0 0 0 0 0 0.0043 0 0.0003 0.0001 0.0007 0.0009 0.004 0 0.0001 0.0001 0.0003 0.0003
Nuclear Periphery 0.7649 0.6205 0.7701 0.6591 0.6424 0.7582 0.7247 0.7266 0.7731 0.626 0.4995 0.7638 0.7218 0.7998 0.8212 0.6554 0.4997 0.8587
Nucleolus 0.0006 0.0012 0.0002 0.0009 0.0051 0.0033 0.0021 0.001 0.0004 0.0022 0.0026 0.0027 0.0029 0.001 0.0018 0.0076 0.004 0.001
Nucleus 0.2055 0.3669 0.2163 0.3327 0.3361 0.2125 0.1775 0.2601 0.1834 0.3511 0.2616 0.1976 0.0737 0.1778 0.1045 0.2127 0.1262 0.0949
Peroxisomes 0 0 0 0 0 0 0.0049 0 0.0005 0 0.0103 0.0002 0.0087 0 0.0043 0.0119 0.0275 0.0001
Punctate Nuclear 0.0001 0.0001 0 0.0002 0.0005 0.0001 0.0073 0.0001 0.0006 0.0001 0.0025 0.0017 0.0087 0.0001 0.0004 0.0009 0.0016 0.0025
Vacuole 0.0013 0.0005 0.0002 0.0001 0.0015 0.0013 0.0028 0.0003 0.0008 0.0015 0.0182 0.0033 0.0055 0.0005 0.0027 0.0104 0.0041 0.0016
Vacuole Periphery 0.0177 0.0098 0.0126 0.0063 0.0121 0.0229 0.0144 0.011 0.0151 0.0167 0.0314 0.0207 0.0193 0.0201 0.0234 0.0175 0.0374 0.024

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 58.9384 55.2785 52.9829 48.8711 52.1969 32.189 46.5767 44.4036 41.5363 53.6284
Translational Efficiency 1.3228 1.5221 1.3074 1.302 1.2407 1.4844 1.3822 1.1009 1.0252 1.169

Hit Data

Dataset Hit
Protein Concentration ✔
Protein Localization ✘
Gene Expression ✘
Translational Efficiency ✘
Standard name
Human Ortholog
Description tRNA methyltransferase; two forms of protein are made by alternative translation starts; localizes to both nucleus and mitochondrion to produce modified base N2,N2-dimethylguanosine in tRNAs in both compartments; nuclear Trm1p is evenly distributed around inner nuclear membrane in WT, but mislocalizes as puncta near ER-nucleus junctions in spindle pole body (SPB) mutants; both Trm1p inner nuclear membrane targeting and maintenance depend upon SPB
Localization
Cell Percentages nuclear periphery (39%), nucleus (9%), mixed (48%)
Cell Cycle Regulation No
Subcompartmental Group N/A

Trm1

Trm1


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 (Trm1-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