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 PARN
Gene summary
Basic gene Info.Gene symbolPARN
Gene namepoly(A)-specific ribonuclease
CytomapUCSC genome browser: 16p13
Type of geneprotein-coding
Descriptiondeadenylating nucleasedeadenylation nucleasepoly(A)-specific ribonuclease (deadenylation nuclease)poly(A)-specific ribonuclease PARNpolyadenylate-specific ribonuclease
Modification date20141207
dbXrefs MIM : 604212
Ensembl : ENSG00000140694
HPRD : 07250
Vega : OTTHUMG00000173199
ProteinUniProt: O95453
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_PARN
BioGPS: 5073
PathwayNCI Pathway Interaction Database: PARN
Pathway Commons: PARN
ContextiHOP: PARN
ligand binding site mutation search in PubMed: PARN
UCL Cancer Institute: PARN
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 PARN
Lollipop-style diagram of mutations at LBS in amino-acid sequence.
We represented ligand binding site mutations only. (You can see big image via clicking.)
: non-synonymous mutation on LBS, Circle size denotes number of samples.

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 PARN
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 PARN from PDB

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


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

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

Pharmacological information for PARN
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 PARN go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS
NUCNucleic Acids2a1rAS112
NUCNucleic Acids2a1rBS112

Conservation information for LBS of PARN
Multiple alignments for O95453 in multiple species
LBSAA sequence# speciesSpecies
D28DFFAIDGEFSG3Homo sapiens, Mus musculus, Bos taurus
D28DFVAIDLEMTG1Arabidopsis thaliana
D28HYVSIDCEFSG1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
D28DFISIDGEFTG1Danio rerio
D477---WIDDTSAF3Homo sapiens, Mus musculus, Bos taurus
D477SVYHVDDSAVF1Arabidopsis thaliana
D477------TALLF1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
D477---WVDDTSAF1Danio rerio
D478--WIDDTSAFV3Homo sapiens, Mus musculus, Bos taurus
D478VYHVDDSAVFV1Arabidopsis thaliana
D478-----TALLFV1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
D478--WVDDTSAFV1Danio rerio
E30FAIDGEFSGIS3Homo sapiens, Mus musculus, Bos taurus
E30VAIDLEMTGVT1Arabidopsis thaliana
E30VSIDCEFSGLL1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
E30ISIDGEFTGIS1Danio rerio
F115SSSIDFLASQG4Homo sapiens, Danio rerio, Mus musculus, Bos taurus
F115TTSMDFLAKYQ1Arabidopsis thaliana
F115ASSIKFLIQQG1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
F31AIDGEFSGISD3Homo sapiens, Mus musculus, Bos taurus
F31AIDLEMTGVTS1Arabidopsis thaliana
F31SIDCEFSGLLR1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
F31SIDGEFTGISD1Danio rerio
G29FFAIDGEFSGI3Homo sapiens, Mus musculus, Bos taurus
G29FVAIDLEMTGV1Arabidopsis thaliana
G29YVSIDCEFSGL1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
G29FISIDGEFTGI1Danio rerio
H287KLVIGHNMLLD2Homo sapiens, Bos taurus
H287KLVVGHNMLLD2Danio rerio, Mus musculus
H287KLIVGHNCFLD1Arabidopsis thaliana
H287KSVVCHNGMAD1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
H377ASEQLHEAGYD3Homo sapiens, Mus musculus, Bos taurus
H377NAGGKHEAGYD1Arabidopsis thaliana
H377-----------1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
H377STEQLHEAGYD1Danio rerio
I34GEFSGISDGPS3Homo sapiens, Mus musculus, Bos taurus
I34LEMTGVTSAPW1Arabidopsis thaliana
I34CEFSGLLRDFN1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
I34GEFTGISDGPS1Danio rerio
K326RLLDTKLMAST4Homo sapiens, Danio rerio, Mus musculus, Bos taurus
K326YIVDTKILLNV1Arabidopsis thaliana
K326SIYDTKLL---1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
K454HVTFPKEWKTS3Homo sapiens, Mus musculus, Bos taurus
K454IWNFPRKLKAR1Arabidopsis thaliana
K454----PHE-AGK1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
K454YVTFPKEWKTS1Danio rerio
K457FPKEWKTSDLY4Homo sapiens, Danio rerio, Mus musculus, Bos taurus
K457FPRKLKARGIK1Arabidopsis thaliana
K457-PHE-AGKDSY1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
L343INNTSLAELEK3Homo sapiens, Mus musculus, Bos taurus
L343KSSTSLSSAFS1Arabidopsis thaliana
L343LKSDDLQHV--1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
L343IHNTSLAELHK1Danio rerio
N288LVIGHNMLLDV2Homo sapiens, Bos taurus
N288LVVGHNMLLDV2Danio rerio, Mus musculus
N288LIVGHNCFLDI1Arabidopsis thaliana
N288SVVCHNGMADL1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
S112VCQSSSIDFLA3Homo sapiens, Mus musculus, Bos taurus
S112LCQTTSMDFLA1Arabidopsis thaliana
S112CSEASSIKFLI1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
S112ICQSSSIDFLA1Danio rerio
S342IINNTSLAELE3Homo sapiens, Mus musculus, Bos taurus
S342KKSSTSLSSAF1Arabidopsis thaliana
S342YLKSDDLQHV-1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
S342IIHNTSLAELH1Danio rerio
W456TFPKEWKTSDL4Homo sapiens, Danio rerio, Mus musculus, Bos taurus
W456NFPRKLKARGI1Arabidopsis thaliana
W456--PHE-AGKDS1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
W475IS---WIDDTS3Homo sapiens, Mus musculus, Bos taurus
W475VTSVYHVDDSA1Arabidopsis thaliana
W475--------TAL1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
W475VS---WVDDTS1Danio rerio

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