mutated Ligand Binding Site gene DataBase





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Gene Summary

Ligand Binding Site Mutation Information

Protein Structure Related Information

Gene Expression and Gene-Gene Network

Phenotype Information

Pharmacological Information

Conservation Information for LBS

Gene summary for RNMT
Gene summary
Basic gene Info.Gene symbolRNMT
Gene nameRNA (guanine-7-) methyltransferase
CytomapUCSC genome browser: 18p11.21
Type of geneprotein-coding
DescriptionhCMT1hMethcm1pmRNA (guanine-7-)methyltransferasemRNA (guanine-N(7)-)-methyltransferasemRNA cap guanine-N7 methyltransferasemRNA cap methyltransferase
Modification date20141207
dbXrefs MIM : 603514
Ensembl : ENSG00000101654
HPRD : 04622
Vega : OTTHUMG00000131718
ProteinUniProt: O43148
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_RNMT
BioGPS: 8731
PathwayNCI Pathway Interaction Database: RNMT
Pathway Commons: RNMT
ContextiHOP: RNMT
ligand binding site mutation search in PubMed: RNMT
UCL Cancer Institute: RNMT
Assigned class in mutLBSgeneDBC: This gene just belongs to mutLBSgenes.

Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO:0036265RNA (guanine-N7)-methylation22099306

Ligand binding site mutations for RNMT

Cancer type specific mutLBS sorted by frequency
LBSAAchange of nsSNVCancer type# samples
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.

Protein structure related information for RNMT
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

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.
LBSAAchange of nsSNVRelative stability change
(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 RNMT from PDB

Differential gene expression and gene-gene network for RNMT
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)
* Left PPI network was created from samples with mutations in the LBS of RNMT and the right PPI network was created from samples without mutations in the LBS of RNMT. Only genes with p-value < 0.05 are shown.
Red circle: input gene. Orange circle: LBSgene. Blue circle: other gene.


Phenotype information for RNMT
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type

Mutation level pathogenic information (ClinVar annotation)
Allele IDAA changeClinical significanceOriginPhenotype IDs

Pharmacological information for RNMT
Gene expression profile of anticancer drug treated cell-lines (CCLE)
Heatmap showing the correlation between gene expression and drug response across all the cell-lines. We chose the top 20 among 138 drugs.We used Pearson's correlation coefficient.
Drug information targeting mutLBSgene (Approved drugs only)
Drug statusDrugBank IDNameTypeDrug structure

Gene-centered ligand-gene interaction network

Ligands binding to mutated ligand binding site of RNMT go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS

Conservation information for LBS of RNMT
Multiple alignments for O43148 in multiple species
LBSAA sequence# speciesSpecies
D227KLVCTDIADVS2Homo sapiens, Xenopus tropicalis
D227RLVCADIADIS2Mus musculus, Rattus norvegicus
D227DVVMADVADVS1Caenorhabditis elegans
D227HLICTDIAEVS1Drosophila melanogaster
D227KLVCADIAAVS1Danio rerio
D261EFITADCSKEL2Mus musculus, Rattus norvegicus
D261EFITADSSKEL1Homo sapiens
D261QFIVADCTKEN1Caenorhabditis elegans
D261EFFACDSTLVR1Drosophila melanogaster
D261EFITADCSREL1Danio rerio
D261EFLTADSTKEL1Xenopus tropicalis
F285ICSCQFVCHYS1Homo sapiens
F285LVSCQFALHYS1Caenorhabditis elegans
F285LVSCQFAFHYC1Drosophila melanogaster
F285VCSCQFVYHYS1Danio rerio
F285ICSCQFVYHYS1Xenopus tropicalis
F285VCSCQFACHYS1Mus musculus
F285ICSCQFACHYS1Rattus norvegicus
G205TVLDLGCGKGG4Homo sapiens, Danio rerio, Mus musculus, Rattus norvegicus
G205RVLDLACGKGG1Caenorhabditis elegans
G205RVLDMCCGKGG1Drosophila melanogaster
G205AVLDLGCGKGG1Xenopus tropicalis
G207LDLGCGKGGDL5Homo sapiens, Danio rerio, Xenopus tropicalis, Mus musculus, Rattus norvegicus
G207LDLACGKGGDL1Caenorhabditis elegans
G207LDMCCGKGGDL1Drosophila melanogaster
I228LVCTDIADVSV2Homo sapiens, Xenopus tropicalis
I228LVCADIADISM2Mus musculus, Rattus norvegicus
I228VVMADVADVSI1Caenorhabditis elegans
I228LICTDIAEVSV1Drosophila melanogaster
I228LVCADIAAVSI1Danio rerio
K180FNNWIKSILIG2Mus musculus, Rattus norvegicus
K180FNNWMKSVLIG1Homo sapiens
K180MNNWVKSQLIN1Caenorhabditis elegans
K180FNNWIKSQLIN1Drosophila melanogaster
K180FNNWLKSVLIA1Danio rerio
K180FNNWMKSALIG1Xenopus tropicalis
M300EQADMMLRNAC3Homo sapiens, Xenopus tropicalis, Rattus norvegicus
M300ASARIFLKNAV1Caenorhabditis elegans
M300AQADCMMRNAA1Drosophila melanogaster
M300SQADTMLRNAC1Danio rerio
M300VQADTMLRNAC1Mus musculus
Q284DICSCQFVCHY1Homo sapiens
Q284DLVSCQFALHY1Caenorhabditis elegans
Q284NLVSCQFAFHY1Drosophila melanogaster
Q284DVCSCQFVYHY1Danio rerio
Q284DICSCQFVYHY1Xenopus tropicalis
Q284DVCSCQFACHY1Mus musculus
Q284DICSCQFACHY1Rattus norvegicus
S262FITADCSKELL2Mus musculus, Rattus norvegicus
S262FITADSSKELL1Homo sapiens
S262FIVADCTKENL1Caenorhabditis elegans
S262FFACDSTLVRL1Drosophila melanogaster
S262FITADCSRELL1Danio rerio
S262FLTADSTKELL1Xenopus tropicalis
V286CSCQFVYHYSF2Danio rerio, Xenopus tropicalis
V286CSCQFACHYSF2Mus musculus, Rattus norvegicus
V286CSCQFVCHYSF1Homo sapiens
V286VSCQFALHYSF1Caenorhabditis elegans
V286VSCQFAFHYCF1Drosophila melanogaster
Y289QFVCHYSFESY1Homo sapiens
Y289QFALHYSFVDE1Caenorhabditis elegans
Y289QFAFHYCFESM1Drosophila melanogaster
Y289QFVYHYSFESE1Danio rerio
Y289QFVYHYSFETY1Xenopus tropicalis
Y289QFACHYSFESQ1Mus musculus
Y289QFACHYSFESL1Rattus norvegicus

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