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mutLBSgeneDB |
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| Gene summary for TRMT6 |
 Gene summary |
| Basic gene Info. | Gene symbol | TRMT6 |
| Gene name | tRNA methyltransferase 6 | |
| Synonyms | GCD10|Gcd10p | |
| Cytomap | UCSC genome browser: 20p12.3 | |
| Type of gene | protein-coding | |
| RefGenes | NM_001281467.1, NM_015939.4, | |
| Description | tRNA (adenine(58)-N(1))-methyltransferase non-catalytic subunit TRM6tRNA methyltransferase 6 homologtRNA(m1A58)MTase subunit TRM6 | |
| Modification date | 20141207 | |
| dbXrefs | HGNC : HGNC | |
| Ensembl : ENSG00000089195 | ||
| HPRD : 13027 | ||
| Vega : OTTHUMG00000031816 | ||
| Protein | UniProt: Q9UJA5 go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_TRMT6 | |
| BioGPS: 51605 | ||
| Pathway | NCI Pathway Interaction Database: TRMT6 | |
| KEGG: TRMT6 | ||
| REACTOME: TRMT6 | ||
| Pathway Commons: TRMT6 | ||
| Context | iHOP: TRMT6 | |
| ligand binding site mutation search in PubMed: TRMT6 | ||
| UCL Cancer Institute: TRMT6 | ||
| Assigned class in mutLBSgeneDB | C: This gene just belongs to mutLBSgenes. | |
| Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
| GO ID | GO Term | PubMed ID |
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| Ligand binding site mutations for TRMT6 |
| Cancer type specific mutLBS sorted by frequency |
| LBS | AAchange of nsSNV | Cancer type | # samples | A174 | A174S | BRCA | 1 | V420 | G419W | COAD | 1 | R415 | R415L | LUAD | 1 | A142 | Q143R | LUAD | 1 | R349 | R348S | LUAD | 1 | Y403 | Q402H | LUAD | 1 | R349 | Q347H | LUSC | 1 |
| cf) Cancer type abbreviation. BLCA: Bladder urothelial carcinoma, BRCA: Breast invasive carcinoma, CESC: Cervical squamous cell carcinoma and endocervical adenocarcinoma, COAD: Colon adenocarcinoma, GBM: Glioblastoma multiforme, LGG: Brain lower grade glioma, HNSC: Head and neck squamous cell carcinoma, KICH: Kidney chromophobe, KIRC: Kidney renal clear cell carcinoma, KIRP: Kidney renal papillary cell carcinoma, LAML: Acute myeloid leukemia, LUAD: Lung adenocarcinoma, LUSC: Lung squamous cell carcinoma, OV: Ovarian serous cystadenocarcinoma, PAAD: Pancreatic adenocarcinoma, PRAD: Prostate adenocarcinoma, SKCM: Skin cutaneous melanoma, STAD: Stomach adenocarcinoma, THCA: Thyroid carcinoma, UCEC: Uterine corpus endometrial carcinoma. |
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| Protein structure related information for TRMT6 |
| Relative protein structure stability change (ΔΔE) using Mupro 1.1 Mupro score denotes assessment of the effect of mutations on thermodynamic stability. (ΔΔE<0: mutation decreases stability, ΔΔE>0: mutation increases stability) |
 : nsSNV at non-LBS : nsSNV at LBS |
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| nsSNVs sorted by the relative stability change of protein structure by each mutation Blue: mutations of positive stability change. and red : the most recurrent mutation for this gene. |
| LBS | AAchange of nsSNV | Relative stability change | Y403 | Q402H | -1.3240629 | R349 | R348S | -1.2627144 | A142 | Q143R | -0.86709803 | V420 | G419W | -0.65575628 | R349 | Q347H | -0.58450725 | A174 | A174S | -0.56878582 | R415 | R415L | -0.35535436 |
| (MuPro1.1: Jianlin Cheng et al., Prediction of Protein Stability Changes for Single-Site Mutations Using Support Vector Machines, PROTEINS: Structure, Function, and Bioinformatics. 2006, 62:1125-1132) |
| Structure image for TRMT6 from PDB |
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| Differential gene expression and gene-gene network for TRMT6 |
| Differential gene expression between mutated and non-mutated LBS samples in all 16 major cancer types |
| Differential co-expressed gene network based on protein-protein interaction data (CePIN) |
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| Phenotype information for TRMT6 |
| Gene level disease information (DisGeNet) |
| Disease ID | Disease name | # PubMed | Association type |
| Mutation level pathogenic information (ClinVar annotation) |
| Allele ID | AA change | Clinical significance | Origin | Phenotype IDs |
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| Pharmacological information for TRMT6 |
| Drug information targeting mutLBSgene (Approved drugs only) |
| Drug status | DrugBank ID | Name | Type | Drug structure |
| Gene-centered ligand-gene interaction network |
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| Ligands binding to mutated ligand binding site of TRMT6 go to BioLip |
| Ligand ID | Ligand short name | Ligand long name | PDB ID | PDB name | mutLBS | NUC | Nucleic Acids | 5ccb | B | A142 A174 | NUC | Nucleic Acids | 5cd1 | B | A174 | NUC | Nucleic Acids | 5cd1 | E | R349 Y403 | NUC | Nucleic Acids | 5cd1 | E | R415 | NUC | Nucleic Acids | 5cd1 | B | R415 V420 |
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| Conservation information for LBS of TRMT6 |
| Multiple alignments for Q9UJA5 in multiple species |
| LBS | AA sequence | # species | Species | A142 | DKTEFAQDKYI | 3 | Homo sapiens, Mus musculus, Bos taurus | A174 | SIMYYAREPGK | 2 | Homo sapiens, Mus musculus | A174 | SVMYYAREPGK | 1 | Bos taurus | A210 | VMETCAGLVLG | 2 | Homo sapiens, Bos taurus | A210 | VMETCSGLVLG | 1 | Mus musculus | A239 | GGPVRAATACF | 2 | Homo sapiens, Bos taurus | A239 | DGPVRAATACF | 1 | Mus musculus | D438 | YQVLPDRSHPK | 3 | Homo sapiens, Mus musculus, Bos taurus | D99 | NRNIVDDGKSQ | 2 | Homo sapiens, Mus musculus | D99 | NRNIIDDGKSQ | 1 | Bos taurus | E176 | MYYAREPGKIN | 3 | Homo sapiens, Mus musculus, Bos taurus | F141 | RDKTEFAQDKY | 3 | Homo sapiens, Mus musculus, Bos taurus | F34 | KREDVFKAVQV | 3 | Homo sapiens, Mus musculus, Bos taurus | G101 | NIVDDGKSQKL | 2 | Homo sapiens, Mus musculus | G101 | NIIDDGKSQKL | 1 | Bos taurus | G178 | YAREPGKINHM | 3 | Homo sapiens, Mus musculus, Bos taurus | G234 | QLYPGGGPVRA | 2 | Homo sapiens, Bos taurus | G234 | QLYPGDGPVRA | 1 | Mus musculus | H182 | PGKINHMRYDT | 3 | Homo sapiens, Mus musculus, Bos taurus | H441 | LPDRSHPKLLM | 3 | Homo sapiens, Mus musculus, Bos taurus | I111 | LTQDDIKALKD | 3 | Homo sapiens, Mus musculus, Bos taurus | I421 | ERGGVINLRLS | 3 | Homo sapiens, Mus musculus, Bos taurus | I97 | TDNRNIVDDGK | 2 | Homo sapiens, Mus musculus | I97 | TDNRNIIDDGK | 1 | Bos taurus | K115 | DIKALKDKGIK | 3 | Homo sapiens, Mus musculus, Bos taurus | K138 | TTFRDKTEFAQ | 3 | Homo sapiens, Mus musculus, Bos taurus | K145 | EFAQDKYIKKK | 3 | Homo sapiens, Mus musculus, Bos taurus | K148 | QDKYIKKKKKK | 3 | Homo sapiens, Mus musculus, Bos taurus | K150 | KYIKKKKKKYE | 3 | Homo sapiens, Mus musculus, Bos taurus | K153 | KKKKKKYEAII | 1 | Homo sapiens | K153 | KKKKKKYEAIV | 1 | Mus musculus | K153 | KKKKKKYEAMI | 1 | Bos taurus | K179 | AREPGKINHMR | 3 | Homo sapiens, Mus musculus, Bos taurus | K49 | KVTFEKQWFYL | 3 | Homo sapiens, Mus musculus, Bos taurus | L128 | EIVQQLIENST | 3 | Homo sapiens, Mus musculus, Bos taurus | L423 | GGVINLRLSET | 3 | Homo sapiens, Mus musculus, Bos taurus | L444 | RSHPKLLMSGG | 3 | Homo sapiens, Mus musculus, Bos taurus | N422 | RGGVINLRLSE | 3 | Homo sapiens, Mus musculus, Bos taurus | N94 | EAGTDNRNIVD | 2 | Homo sapiens, Mus musculus | N94 | EAGTDNRNIID | 1 | Bos taurus | P177 | YYAREPGKINH | 3 | Homo sapiens, Mus musculus, Bos taurus | Q104 | DDGKSQKLTQD | 3 | Homo sapiens, Mus musculus, Bos taurus | Q108 | SQKLTQDDIKA | 3 | Homo sapiens, Mus musculus, Bos taurus | Q350 | EKQRRQEEQRK | 2 | Homo sapiens, Mus musculus | Q350 | EKQRRQEEQKK | 1 | Bos taurus | Q434 | WLRNYQVLPDR | 3 | Homo sapiens, Mus musculus, Bos taurus | R175 | IMYYAREPGKI | 2 | Homo sapiens, Mus musculus | R175 | VMYYAREPGKI | 1 | Bos taurus | R349 | QEKQRRQEEQR | 2 | Homo sapiens, Mus musculus | R349 | QEKQRRQEEQK | 1 | Bos taurus | R377 | LIVASRFHPTP | 3 | Homo sapiens, Mus musculus, Bos taurus | R415 | CYTKLRERGGV | 3 | Homo sapiens, Mus musculus, Bos taurus | R439 | QVLPDRSHPKL | 3 | Homo sapiens, Mus musculus, Bos taurus | S103 | VDDGKSQKLTQ | 2 | Homo sapiens, Mus musculus | S103 | IDDGKSQKLTQ | 1 | Bos taurus | T134 | IENSTTFRDKT | 3 | Homo sapiens, Mus musculus, Bos taurus | V237 | PGGGPVRAATA | 2 | Homo sapiens, Bos taurus | V237 | PGDGPVRAATA | 1 | Mus musculus | V33 | LKREDVFKAVQ | 3 | Homo sapiens, Mus musculus, Bos taurus | V420 | RERGGVINLRL | 3 | Homo sapiens, Mus musculus, Bos taurus | Y146 | FAQDKYIKKKK | 3 | Homo sapiens, Mus musculus, Bos taurus | Y154 | KKKKKYEAIIT | 1 | Homo sapiens | Y154 | KKKKKYEAIVT | 1 | Mus musculus | Y154 | KKKKKYEAMIT | 1 | Bos taurus | Y403 | VVYCQYKEPLL | 3 | Homo sapiens, Mus musculus, Bos taurus | Y411 | PLLECYTKLRE | 3 | Homo sapiens, Mus musculus, Bos taurus |
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