mutLBSgeneDB |
Gene summary for SNX17 |
Gene summary |
Basic gene Info. | Gene symbol | SNX17 |
Gene name | sorting nexin 17 | |
Synonyms | - | |
Cytomap | UCSC genome browser: 2p23-p22 | |
Type of gene | protein-coding | |
RefGenes | NM_001267059.1, NM_001267060.1,NM_001267061.1,NM_014748.3,NR_049782.1, NR_049783.1,NR_049784.1,NR_049785.1,NR_049786.1, NR_049787.1,NR_049788.1, | |
Description | sorting nexin-17 | |
Modification date | 20141207 | |
dbXrefs | MIM : 605963 | |
HGNC : HGNC | ||
Ensembl : ENSG00000115234 | ||
HPRD : 05812 | ||
Vega : OTTHUMG00000097781 | ||
Protein | UniProt: Q15036 go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_SNX17 | |
BioGPS: 9784 | ||
Pathway | NCI Pathway Interaction Database: SNX17 | |
KEGG: SNX17 | ||
REACTOME: SNX17 | ||
Pathway Commons: SNX17 | ||
Context | iHOP: SNX17 | |
ligand binding site mutation search in PubMed: SNX17 | ||
UCL Cancer Institute: SNX17 | ||
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 |
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Ligand binding site mutations for SNX17 |
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 |
LBS | AAchange of nsSNV | Cancer type | # samples | L346 | R345H | BRCA | 1 | L353 | Y352N | BRCA | 1 | Q377 | Q377E | KIRC | 1 | Q377 | C375Y | STAD | 1 | T316 | T316A | STAD | 1 | K63 | L64P | 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. |
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Protein structure related information for SNX17 |
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 | L353 | Y352N | -1.2528293 | K63 | L64P | -1.0798889 | T316 | T316A | -0.94949933 | Q377 | C375Y | -0.91596132 | L346 | R345H | -0.66826417 | Q377 | Q377E | -0.34456823 |
(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 SNX17 from PDB |
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Differential gene expression and gene-gene network for SNX17 |
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) |
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Phenotype information for SNX17 |
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 |
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Pharmacological information for SNX17 |
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 status | DrugBank ID | Name | Type | Drug structure |
Gene-centered ligand-gene interaction network |
Ligands binding to mutated ligand binding site of SNX17 go to BioLip |
Ligand ID | Ligand short name | Ligand long name | PDB ID | PDB name | mutLBS | SO4 | SULFATE | 3lui | B | K63 | III | Peptide ligand (THR,CYS,ILE,TYR,ASN,PRO,LEU,PHE,GLY,SER) | 4tkn | A | T316 | III | Peptide ligand (GLY,THR,TYR,GLY,VAL,PHE,THR,ASN,ALA,ALA,TYR,ASP,PRO,THR,PRO) | 4gxb | A | T316 L346 L353 | III | Peptide ligand (THR,CYS,ILE,TYR,ASN,PRO,LEU,PHE,GLY) | 4tkn | B | T316 L353 Q377 | III | Peptide ligand (THR,CYS,ILE,TYR,ASN,PRO,LEU,PHE,GLY) | 4tkn | C | T316 L353 Q377 |
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Conservation information for LBS of SNX17 |
Multiple alignments for Q15036 in multiple species |
LBS | AA sequence | # species | Species | C320 | VTRMRCWRVTS | 5 | Homo sapiens, Danio rerio, Bos taurus, Mus musculus, Rattus norvegicus | I370 | TSPQAIMMSIC | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | I370 | TSQQAIMMSIC | 1 | Danio rerio | K63 | AFPPKKLFSLT | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | K63 | AFPPKKIFTLT | 1 | Danio rerio | L346 | RGEVRLELAFE | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | L346 | KCDVKLELAFE | 1 | Danio rerio | L353 | LAFEYLMSKDR | 5 | Homo sapiens, Danio rerio, Bos taurus, Mus musculus, Rattus norvegicus | L383 | SMVDELMVKKS | 5 | Homo sapiens, Danio rerio, Bos taurus, Mus musculus, Rattus norvegicus | M318 | FRVTRMRCWRV | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | M318 | FKVTRMRCWRV | 1 | Danio rerio | M384 | MVDELMVKKSG | 5 | Homo sapiens, Danio rerio, Bos taurus, Mus musculus, Rattus norvegicus | Q377 | MSICLQSMVDE | 5 | Homo sapiens, Danio rerio, Bos taurus, Mus musculus, Rattus norvegicus | Q74 | PAEVEQRREQL | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | Q74 | PAEVDQRREQL | 1 | Danio rerio | Q78 | EQRREQLEKYM | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | Q78 | DQRREQLEKYM | 1 | Danio rerio | R317 | SFRVTRMRCWR | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | R317 | SFKVTRMRCWR | 1 | Danio rerio | R319 | RVTRMRCWRVT | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | R319 | KVTRMRCWRVT | 1 | Danio rerio | R322 | RMRCWRVTSS- | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | R322 | RMRCWRVTSSQ | 1 | Danio rerio | S325 | CWRVTSS-VPL | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | S325 | CWRVTSSQVPV | 1 | Danio rerio | T316 | GSFRVTRMRCW | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | T316 | GSFKVTRMRCW | 1 | Danio rerio | V315 | EGSFRVTRMRC | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | V315 | EGSFKVTRMRC | 1 | Danio rerio | V323 | MRCWRVTSS-V | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | V323 | MRCWRVTSSQV | 1 | Danio rerio | V380 | CLQSMVDELMV | 5 | Homo sapiens, Danio rerio, Bos taurus, Mus musculus, Rattus norvegicus | W321 | TRMRCWRVTSS | 5 | Homo sapiens, Danio rerio, Bos taurus, Mus musculus, Rattus norvegicus | W361 | KDRLQWVTITS | 5 | Homo sapiens, Danio rerio, Bos taurus, Mus musculus, Rattus norvegicus |
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