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 NTN1
Gene summary
Basic gene Info.Gene symbolNTN1
Gene namenetrin 1
CytomapUCSC genome browser: 17p13-p12
Type of geneprotein-coding
Descriptionepididymis tissue protein Li 131Pnetrin 1, mouse, homolog ofnetrin-1
Modification date20141207
dbXrefs MIM : 601614
Ensembl : ENSG00000065320
HPRD : 03368
Vega : OTTHUMG00000130257
ProteinUniProt: O95631
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_NTN1
BioGPS: 9423
PathwayNCI Pathway Interaction Database: NTN1
Pathway Commons: NTN1
ContextiHOP: NTN1
ligand binding site mutation search in PubMed: NTN1
UCL Cancer Institute: NTN1
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 NTN1

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 NTN1
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 NTN1 from PDB

Differential gene expression and gene-gene network for NTN1
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 NTN1 and the right PPI network was created from samples without mutations in the LBS of NTN1. Only genes with p-value < 0.05 are shown.
Red circle: input gene. Orange circle: LBSgene. Blue circle: other gene.


Phenotype information for NTN1
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type

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

Pharmacological information for NTN1
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 NTN1 go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS
SO4SULFATE4urtAG377 H381

Conservation information for LBS of NTN1
Multiple alignments for O95631 in multiple species
LBSAA sequence# speciesSpecies
A438TCNRCAKGYQQ4Homo sapiens, Caenorhabditis elegans, Mus musculus, Gallus gallus
A438TCNRCARGYQQ1Drosophila melanogaster
D110PAFLTDLNNPH2Homo sapiens, Mus musculus
D110ASLLTDLNSIG1Caenorhabditis elegans
D110PAALTDLNNPS1Drosophila melanogaster
D110PSFLTDLNNPH1Gallus gallus
D209TDSHTDMRPLS2Homo sapiens, Mus musculus
D209TASHI-MGP-G1Caenorhabditis elegans
D209INSQHDTGG-A1Drosophila melanogaster
D209TDSHTDVRPLS1Gallus gallus
F107AHPPAFLTDLN2Homo sapiens, Mus musculus
F107SHPASLLTDLN1Caenorhabditis elegans
F107RYGPAALTDLN1Drosophila melanogaster
F107AHPPSFLTDLN1Gallus gallus
G377RHNTAGRHCHY3Homo sapiens, Mus musculus, Gallus gallus
G377RHNTAGRNCHL1Caenorhabditis elegans
G377QHDTTGRYCHY1Drosophila melanogaster
G431KDGVTGITCNR3Homo sapiens, Mus musculus, Gallus gallus
G431KPGVTGTTCNR1Caenorhabditis elegans
G431KEGVTGLTCNR1Drosophila melanogaster
H207VCTDSHTDMRP2Homo sapiens, Mus musculus
H207VCTASHI-MGP1Caenorhabditis elegans
H207RCINSQHDTGG1Drosophila melanogaster
H207ICTDSHTDVRP1Gallus gallus
H308VCDCRHNTAGP2Homo sapiens, Mus musculus
H308TCDCKHNTAGT1Caenorhabditis elegans
H308TCACKHNTAGP1Drosophila melanogaster
H308VCDCKHNTAGP1Gallus gallus
H381AGRHCHYCKEG3Homo sapiens, Mus musculus, Gallus gallus
H381AGRNCHLCKPG1Caenorhabditis elegans
H381TGRYCHYCREG1Drosophila melanogaster
I432DGVTGITCNRC3Homo sapiens, Mus musculus, Gallus gallus
I432PGVTGTTCNRC1Caenorhabditis elegans
I432EGVTGLTCNRC1Drosophila melanogaster
K439CNRCAKGYQQS4Homo sapiens, Caenorhabditis elegans, Mus musculus, Gallus gallus
K439CNRCARGYQQT1Drosophila melanogaster
N112FLTDLNNPHNL3Homo sapiens, Mus musculus, Gallus gallus
N112LLTDLNSIGNM1Caenorhabditis elegans
N112ALTDLNNPSNV1Drosophila melanogaster
N186CRKMYNRPHRA2Homo sapiens, Mus musculus
N186CRRIFGRDPDV1Caenorhabditis elegans
N186CQKFYGRPDRA1Drosophila melanogaster
N186CRKMYNKPSRA1Gallus gallus
P188KMYNRPHRAPI2Homo sapiens, Mus musculus
P188RIFGRDPDVSI1Caenorhabditis elegans
P188KFYGRPDRAKI1Drosophila melanogaster
P188KMYNKPSRAAI1Gallus gallus
R155C--SPRPESMA3Homo sapiens, Mus musculus, Gallus gallus
R155C--SRLPDSMA1Caenorhabditis elegans
R155CPRSPRPDSLA1Drosophila melanogaster
R182YSTQCRKMYNR2Homo sapiens, Mus musculus
R182YSSECRRIFGR1Caenorhabditis elegans
R182YSSQCQKFYGR1Drosophila melanogaster
R182YSTQCRKMYNK1Gallus gallus
R307LVCDCRHNTAG2Homo sapiens, Mus musculus
R307YTCDCKHNTAG1Caenorhabditis elegans
R307MTCACKHNTAG1Drosophila melanogaster
R307LVCDCKHNTAG1Gallus gallus
R348CNLHARRCRFN3Homo sapiens, Mus musculus, Gallus gallus
R348CNQHAKRCRFD1Caenorhabditis elegans
R348CNGHARRCRFN1Drosophila melanogaster
R378HNTAGRHCHYC3Homo sapiens, Mus musculus, Gallus gallus
R378HNTAGRNCHLC1Caenorhabditis elegans
R378HDTTGRYCHYC1Drosophila melanogaster
R398KPITHRKACKA2Homo sapiens, Mus musculus
R398LPMTHRKACKS1Caenorhabditis elegans
R398KPPNHRKVCKR1Drosophila melanogaster
R398KPISHRKACKE1Gallus gallus
R436GITCNRCAKGY3Homo sapiens, Mus musculus, Gallus gallus
R436GTTCNRCAKGY1Caenorhabditis elegans
R436GLTCNRCARGY1Drosophila melanogaster
S277-FYAVSDLQVG2Homo sapiens, Gallus gallus
S277-FYSMGELAVG1Caenorhabditis elegans
S277QHYAVSDFAVG1Drosophila melanogaster
S277-YYAVSDLQVG1Mus musculus
T118NPHNLTCWQS-3Homo sapiens, Mus musculus, Gallus gallus
T118SIGNMTCWVS-1Caenorhabditis elegans
T118NPSNVTCWRSG1Drosophila melanogaster
T430CKDGVTGITCN3Homo sapiens, Mus musculus, Gallus gallus
T430CKPGVTGTTCN1Caenorhabditis elegans
T430CKEGVTGLTCN1Drosophila melanogaster

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