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 YTHDF2
Gene summary
Basic gene Info.Gene symbolYTHDF2
Gene nameYTH N(6)-methyladenosine RNA binding protein 2
CytomapUCSC genome browser: 1p35
Type of geneprotein-coding
Description9430020E02RikCLL-associated antigen KW-14YTH domain family, member 2YTH domain-containing family protein 2high-glucose-regulated protein 8renal carcinoma antigen NY-REN-2
Modification date20141207
dbXrefs MIM : 610640
Ensembl : ENSG00000198492
HPRD : 06587
Vega : OTTHUMG00000003648
ProteinUniProt: Q9Y5A9
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_YTHDF2
BioGPS: 51441
PathwayNCI Pathway Interaction Database: YTHDF2
Pathway Commons: YTHDF2
ContextiHOP: YTHDF2
ligand binding site mutation search in PubMed: YTHDF2
UCL Cancer Institute: YTHDF2
Assigned class in mutLBSgeneDBC: This gene just belongs to mutLBSgenes.

Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez

Ligand binding site mutations for YTHDF2

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 YTHDF2
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 YTHDF2 from PDB

Differential gene expression and gene-gene network for YTHDF2
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 YTHDF2 and the right PPI network was created from samples without mutations in the LBS of YTHDF2. Only genes with p-value < 0.05 are shown.
Red circle: input gene. Orange circle: LBSgene. Blue circle: other gene.


Phenotype information for YTHDF2
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type

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

Pharmacological information for YTHDF2
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 YTHDF2 go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS

Conservation information for LBS of YTHDF2
Multiple alignments for Q9Y5A9 in multiple species
LBSAA sequence# speciesSpecies
C433KYNIWCSTEHG3Homo sapiens, Bos taurus, Mus musculus
D422SYSEDDIHRSI3Homo sapiens, Bos taurus, Mus musculus
D528VTNSRDTQEVP3Homo sapiens, Bos taurus, Mus musculus
K416RVFIIKSYSED3Homo sapiens, Bos taurus, Mus musculus
K490VWSQDKWKGRF3Homo sapiens, Bos taurus, Mus musculus
N462LLFSVNGSGHF3Homo sapiens, Bos taurus, Mus musculus
S417VFIIKSYSEDD3Homo sapiens, Bos taurus, Mus musculus
T435NIWCSTEHGNK3Homo sapiens, Bos taurus, Mus musculus
W432IKYNIWCSTEH3Homo sapiens, Bos taurus, Mus musculus
W486TCAGVWSQDKW3Homo sapiens, Bos taurus, Mus musculus
W491WSQDKWKGRFD3Homo sapiens, Bos taurus, Mus musculus
Y418FIIKSYSEDDI3Homo sapiens, Bos taurus, Mus musculus

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