mutLBSgeneDB

mutLBSgeneDB
mutated Ligand Binding Site gene DataBase

Home

	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 TARBP1

Gene summary

Basic gene Info.	Gene symbol	TARBP1
	Gene name	TAR (HIV-1) RNA binding protein 1
	Synonyms	TRM3\|TRP-185\|TRP185
	Cytomap	UCSC genome browser: 1q42.3
	Type of gene	protein-coding
	RefGenes	NM_005646.3,
	Description	TAR (HIV) RNA binding protein 1TAR (HIV) RNA-binding protein 1TAR RNA loop binding proteinTAR RNA-binding protein 1TAR RNA-binding protein of 185 kDaprobable methyltransferase TARBP1tRNA methyltransferase 3 homolog
	Modification date	20141207
dbXrefs	MIM : 605052
	HGNC : HGNC
	Ensembl : ENSG00000059588
	HPRD : 05445
	Vega : OTTHUMG00000037947
Protein	UniProt: Q13395 go to UniProt's Cross Reference DB Table
Expression	CleanEX: HS_TARBP1
	BioGPS: 6894
Pathway	NCI Pathway Interaction Database: TARBP1
	KEGG: TARBP1
	REACTOME: TARBP1
	Pathway Commons: TARBP1
Context	iHOP: TARBP1
	ligand binding site mutation search in PubMed: TARBP1
	UCL Cancer Institute: TARBP1
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

Top

Ligand binding site mutations for TARBP1

Cancer type specific mutLBS sorted by frequency

LBS	AAchange of nsSNV	Cancer type	# samples
R1593	R1593C	COAD	1
Q1588	Q1589H	UCEC	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.

Top

Protein structure related information for TARBP1

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.

LBS	AAchange of nsSNV	Relative stability change
Q1588	Q1589H	-0.82374868
R1593	R1593C	-0.69887002

(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 TARBP1 from PDB

Top

Differential gene expression and gene-gene network for TARBP1

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 TARBP1 and the right PPI network was created from samples without mutations in the LBS of TARBP1. Only genes with p-value < 0.05 are shown.
Red circle: input gene. Orange circle: LBSgene. Blue circle: other gene.

Top

Phenotype information for TARBP1

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

Top

Pharmacological information for TARBP1

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.