mutLBSgeneDB

mutLBSgeneDB
mutated Ligand Binding Site gene DataBase

Home

Download

 Statistics

Help

About Us

Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

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 PTPN3
Gene summary
Basic gene Info.Gene symbolPTPN3
Gene nameprotein tyrosine phosphatase, non-receptor type 3
SynonymsPTP-H1|PTPH1
CytomapUCSC genome browser: 9q31
Type of geneprotein-coding
RefGenesNM_001145368.1,
NM_001145369.1,NM_001145370.1,NM_001145371.1,NM_001145372.1,
NM_002829.3,NR_026918.1,
Descriptioncytoskeletal-associated protein tyrosine phosphataseprotein-tyrosine phosphatase H1tyrosine-protein phosphatase non-receptor type 3
Modification date20141207
dbXrefs MIM : 176877
HGNC : HGNC
Ensembl : ENSG00000070159
HPRD : 06767
Vega : OTTHUMG00000020475
ProteinUniProt: P26045
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_PTPN3
BioGPS: 5774
PathwayNCI Pathway Interaction Database: PTPN3
KEGG: PTPN3
REACTOME: PTPN3
Pathway Commons: PTPN3
ContextiHOP: PTPN3
ligand binding site mutation search in PubMed: PTPN3
UCL Cancer Institute: PTPN3
Assigned class in mutLBSgeneDBC: This gene just belongs to mutLBSgenes.

Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO IDGO TermPubMed ID
GO:0006470protein dephosphorylation10364224
GO:0035335peptidyl-tyrosine dephosphorylation19167335
GO:0045930negative regulation of mitotic cell cycle10364224
GO:0098902regulation of membrane depolarization during action potential16930557
GO:2000649regulation of sodium ion transmembrane transporter activity16930557


Top
Ligand binding site mutations for PTPN3

Cancer type specific mutLBS sorted by frequency
LBSAAchange of nsSNVCancer type# samples
H812H812RCOAD1
H812H812NCOAD1
H812V814LLUAD1
R751R751QLUSC1
H812H812LOV1
D811D811EOV1
R751R749QSKCM1
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 PTPN3
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
R751R749Q-1.2380085
R751R751Q-1.1991519
H812V814L-0.97127467
H812H812N-0.82061073
D811D811E-0.66336574
H812H812R-0.42677227
H812H812L-0.045749782
(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 PTPN3 from PDB

Top
Differential gene expression and gene-gene network for PTPN3
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 PTPN3 and the right PPI network was created from samples without mutations in the LBS of PTPN3. Only genes with p-value < 0.05 are shown.
Red circle: input gene. Orange circle: LBSgene. Blue circle: other gene.


Top

Top
Phenotype information for PTPN3
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type

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

Top
Pharmacological information for PTPN3
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 PTPN3 go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS
VO4VANADATE(3-)4ri4AD811
VO4VANADATE(3-)4ri4BD811
IIIPeptide ligand (PHE,SER,ALA,TYR,PRO,SER)4rh5AH812
IIIPeptide ligand (PHE,SER,ALA,TYR,PRO,SER,GLU)4rhgAH812
IIIPeptide ligand (PHE,SER,ALA,TYR,VAL,SER)4s0gAH812
IIIPeptide ligand (MET,THR,GLY,TYR,VAL,VAL,THR,ARG)4qumAR751 H812


Top
Conservation information for LBS of PTPN3
Multiple alignments for P26045 in multiple species
LBSAA sequence# speciesSpecies


Copyright © 2016-Present - The University of Texas Health Science Center at Houston
Site Policies | State of Texas