Standard name
Human Ortholog
Description tRNA methyltransferase; catalyzes modification of wobble bases in tRNA anticodons to 2, 5-methoxycarbonylmethyluridine and 5-methoxycarbonylmethyl-2-thiouridine; may act as part of a complex with Trm112p; deletion mutation increases translational infidelity, including amino acid misincorporation and -1 frameshifting, and also confers resistance to zymocin; null mutant displays activation of stress responses

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 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 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 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 0 0 0 0 0 0.08 0 0 0 0 0 0 0
Cytoplasm 0.98 0.97 0.99 0.99 0.97 0.93 0.87 0.87 0.79 0.83 0.75 0.75 0.98 0.98 1.0 0.97 0.94 0.93 0.95 0.95 0.91 0.89 0.94 0.92
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.07 0.06 0.06 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 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 0
Mitochondria 0 0.06 0 0 0 0.13 0.17 0.11 0.38 0.27 0.38 0.32 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 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 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 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 0
Vac/Vac Membrane 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 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 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0
Bud 0 3 0 1 2 2 1 2 8 7 13 2 0 1 0 0 0 0 0 0 1 1 1 2
Bud Neck 0 0 0 0 1 0 0 3 1 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0
Bud Site 0 0 0 0 0 0 1 0 0 0 0 1 0 0 0 0 0 0
Cell Periphery 1 2 9 6 8 4 7 7 3 8 4 7 2 0 1 3 11 3 0 0 0 0 0 0
Cytoplasm 95 162 285 230 413 364 403 436 351 346 336 336 157 221 257 129 131 155 104 169 268 143 228 218
Endoplasmic Reticulum 0 0 0 3 0 0 0 0 0 0 0 0 1 0 0 9 8 10 0 0 2 1 0 1
Endosome 0 0 0 0 1 4 2 1 6 3 3 3 0 2 0 2 2 3 0 0 2 0 0 2
Golgi 0 0 0 0 0 0 0 1 0 0 1 0 1 1 0 0 2 1 0 1 0 0 1 0
Mitochondria 2 10 1 10 5 50 78 56 169 114 169 142 0 0 0 5 2 3 2 2 6 2 1 2
Nucleus 2 0 0 0 2 0 2 3 1 2 3 1 0 0 1 0 0 2 0 0 0 0 2 3
Nuclear Periphery 0 0 0 0 1 0 0 2 0 2 0 1 0 0 0 0 0 0 0 0 0 0 0 0
Nucleolus 0 0 0 0 1 1 2 13 2 1 3 3 0 1 1 0 0 0 0 0 0 0 0 1
Peroxisomes 0 0 0 0 0 0 0 1 0 0 0 1 0 1 0 0 0 0 0 0 0 0 0 0
SpindlePole 0 0 0 0 1 0 5 0 2 0 1 3 0 0 0 1 1 0 0 0 0 0 0 1
Vac/Vac Membrane 0 0 5 3 11 10 4 15 13 7 9 16 1 0 0 4 3 5 1 0 2 4 3 0
Unique Cell Count 97 167 289 233 427 391 461 503 444 417 448 449 160 225 258 133 139 166 110 178 295 161 244 238
Labelled Cell Count 100 177 300 253 446 435 506 540 556 490 542 516 162 227 260 153 160 182 110 178 295 161 244 238


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) 5.8 4.5 6.9 6.3 6.7 5.4 5.5 6.1 4.6 4.7 4.8 4.9 6.5 6.4 6.4 6.4 7.9 8.3 7.8 7.7 7.7
Std Deviation (1e-4) 0.7 0.6 1.6 1.3 1.6 1.3 2.5 4.6 1.8 1.3 2.0 1.9 1.6 1.5 1.5 1.4 1.5 1.6 2.5 2.2 2.3
Intensity Change (Log2) -0.12 -0.04 -0.34 -0.33 -0.16 -0.58 -0.55 -0.52 -0.5 -0.09 -0.1 -0.09 -0.1 0.2 0.27 0.18 0.16 0.17


Localization RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3
Actin
Bud
Bud Neck
Bud Site
Cell Periphery
Cyto
Endoplasmic Reticulum
Endosome
Golgi
Mitochondria
Nuclear Periphery
Nuc
Nucleolus
Peroxisomes
SpindlePole
Vac
Cortical Patches
Cytoplasm
Nucleus
Vacuole

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 4.6008 5.8549 5.1885 4.5196 5.2643 5.2659 4.5311 5.3686 5.2454 4.2101 4.6515 5.2815 1.8258 3.0407 2.6653 2.6131 2.2738 2.4976
Actin 0.0228 0.0016 0.0089 0.0684 0.0064 0.0161 0.058 0.0002 0.0254 0.0005 0.001 0.0195 0.0353 0.0002 0.0219 0.0014 0.0047 0.0001
Bud 0.0006 0.0011 0.0002 0.0004 0.0003 0.0016 0.0008 0.0001 0.0003 0.0002 0.0003 0.0001 0.0016 0.0001 0.0007 0.0003 0.0004 0
Bud Neck 0.0008 0.0002 0.001 0.0132 0.0005 0.0011 0.0005 0.0001 0.0002 0.0002 0.0004 0.0004 0.0061 0.0001 0.0005 0.0006 0.0008 0.0006
Bud Periphery 0.0008 0.0012 0.0002 0.0003 0.0008 0.0053 0.0018 0 0.0001 0.0001 0.0002 0.0001 0.0017 0 0.0006 0.0002 0.0007 0
Bud Site 0.0026 0.009 0.0015 0.0021 0.0013 0.0004 0.0031 0.0003 0.0014 0.0002 0.001 0.0001 0.0032 0.0004 0.0017 0.0048 0.0007 0
Cell Periphery 0.0004 0.0005 0.0006 0.0002 0.0004 0.0004 0.0015 0.0001 0.0001 0.0001 0.0001 0.0001 0.0004 0.0002 0.0003 0.0001 0.0001 0
Cytoplasm 0.7895 0.8437 0.884 0.7166 0.6958 0.8532 0.5232 0.9413 0.7822 0.958 0.8034 0.8558 0.6858 0.9713 0.8553 0.8919 0.8111 0.9638
Cytoplasmic Foci 0.0219 0.007 0.0161 0.0419 0.0256 0.0148 0.0406 0.0029 0.0103 0.0047 0.027 0.004 0.0681 0.002 0.0137 0.0179 0.0303 0.0034
Eisosomes 0.0003 0.0001 0.0001 0.0002 0.0002 0 0.0012 0.0001 0.0001 0 0 0.0001 0.0004 0 0.0002 0 0.0001 0
Endoplasmic Reticulum 0.0105 0.0027 0.0069 0.0034 0.0035 0.0062 0.0068 0.0027 0.0027 0.0034 0.0013 0.0072 0.0123 0.002 0.0038 0.0039 0.0022 0.0019
Endosome 0.0283 0.0062 0.0071 0.0231 0.0467 0.0111 0.0442 0.0013 0.0164 0.0032 0.0454 0.003 0.0468 0.0008 0.0145 0.0054 0.0418 0.0023
Golgi 0.0101 0.0007 0.006 0.0057 0.0144 0.0022 0.0406 0.0003 0.0143 0.0002 0.0362 0.0024 0.0181 0.0001 0.0135 0.0024 0.0147 0.0001
Lipid Particles 0.0051 0.0015 0.0014 0.0116 0.0127 0.0005 0.0316 0.0001 0.0035 0.0001 0.0056 0.0011 0.0053 0.0001 0.0074 0.0079 0.0251 0
Mitochondria 0.0144 0.0004 0.0037 0.0275 0.0035 0.0009 0.0487 0.0001 0.001 0.0001 0.0062 0.0005 0.0038 0 0.0099 0.0024 0.0028 0
None 0.0739 0.1043 0.0538 0.0367 0.174 0.0824 0.1399 0.0492 0.1335 0.026 0.0622 0.1035 0.053 0.0215 0.0284 0.0403 0.0084 0.0262
Nuclear Periphery 0.0016 0.0004 0.0007 0.0008 0.0018 0.0004 0.005 0.0003 0.0005 0.0005 0.0004 0.0003 0.0106 0.0002 0.0066 0.0004 0.0258 0.0002
Nucleolus 0.0004 0.0001 0.0001 0.0001 0.0007 0 0.0022 0 0 0 0.0001 0 0.0004 0 0.0002 0.0003 0.0034 0
Nucleus 0.0013 0.0005 0.0005 0.001 0.0012 0.0006 0.0036 0.0003 0.0005 0.0006 0.0006 0.0004 0.0124 0.0004 0.0049 0.0007 0.0071 0.0004
Peroxisomes 0.0037 0.0177 0.0056 0.0417 0.0049 0.0006 0.0229 0 0.0056 0 0.0058 0.0008 0.0165 0 0.0114 0.0158 0.0042 0
Punctate Nuclear 0.0086 0.0002 0.0006 0.001 0.0033 0.0005 0.003 0.0001 0.0004 0.0001 0.0003 0.0001 0.0046 0.0001 0.0017 0.0005 0.0117 0.0001
Vacuole 0.0017 0.0008 0.0009 0.0035 0.0013 0.0013 0.0121 0.0005 0.001 0.0016 0.0021 0.0006 0.0122 0.0005 0.0024 0.0025 0.002 0.0006
Vacuole Periphery 0.0004 0.0001 0.0002 0.0006 0.0005 0.0002 0.0086 0.0001 0.0003 0.0002 0.0005 0.0001 0.0014 0 0.0005 0.0003 0.002 0.0001

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 31.5258 23.4851 23.5264 26.494 26.3982 21.0056 31.1664 26.8449 26.5616 30.1693
Translational Efficiency 1.5046 1.5531 1.5541 1.1406 1.5722 1.7855 1.1965 1.0025 1.1293 1.4125

Hit Data

Dataset Hit
Protein Concentration
Protein Localization
Gene Expression
Translational Efficiency
Standard name
Human Ortholog
Description tRNA methyltransferase; catalyzes modification of wobble bases in tRNA anticodons to 2, 5-methoxycarbonylmethyluridine and 5-methoxycarbonylmethyl-2-thiouridine; may act as part of a complex with Trm112p; deletion mutation increases translational infidelity, including amino acid misincorporation and -1 frameshifting, and also confers resistance to zymocin; null mutant displays activation of stress responses
Localization
Cell Percentages cytoplasm (97%)
Cell Cycle Regulation No
Subcompartmental Group cytoplasm-9

Trm9

Trm9


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 (Trm9-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