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mutLBSgeneDB |
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| Gene summary for VNN1 |
 Gene summary |
| Basic gene Info. | Gene symbol | VNN1 |
| Gene name | vanin 1 | |
| Synonyms | HDLCQ8|Tiff66 | |
| Cytomap | UCSC genome browser: 6q23-q24 | |
| Type of gene | protein-coding | |
| RefGenes | NM_004666.2, | |
| Description | pantetheinasepantetheine hydrolasevanin-1vannin 1vascular non-inflammatory molecule 1 | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 603570 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000112299 | ||
| HPRD : 04651 | ||
| Vega : OTTHUMG00000015587 | ||
| Protein | UniProt: O95497 go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_VNN1 | |
| BioGPS: 8876 | ||
| Pathway | NCI Pathway Interaction Database: VNN1 | |
| KEGG: VNN1 | ||
| REACTOME: VNN1 | ||
| Pathway Commons: VNN1 | ||
| Context | iHOP: VNN1 | |
| ligand binding site mutation search in PubMed: VNN1 | ||
| UCL Cancer Institute: VNN1 | ||
| 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 | GO:0015939 | pantothenate metabolic process | 11491533 |
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| Ligand binding site mutations for VNN1 |
| 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. |
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| Cancer type specific mutLBS sorted by frequency |
| LBS | AAchange of nsSNV | Cancer type | # samples | E79 | P78S | LUAD | 1 | M239 | M239I | LUAD | 1 | F338 | D340N | 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 VNN1 |
| 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 |
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| 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 | F338 | D340N | -0.84922032 | M239 | M239I | -0.38739164 | E79 | P78S | -0.29942138 |
| (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 VNN1 from PDB |
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| Differential gene expression and gene-gene network for VNN1 |
| 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 VNN1 |
| Gene level disease information (DisGeNet) |
| Disease ID | Disease name | # PubMed | Association type |
| umls:C0021390 | Inflammatory Bowel Diseases | 2 | Biomarker, Therapeutic |
| umls:C0033860 | Psoriasis | 1 | Biomarker |
| umls:C0011615 | Dermatitis, Atopic | 1 | Biomarker |
| umls:C0242339 | Dyslipidemias | 1 | Biomarker |
| Mutation level pathogenic information (ClinVar annotation) |
| Allele ID | AA change | Clinical significance | Origin | Phenotype IDs |
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| Pharmacological information for VNN1 |
| 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. |
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| Drug information targeting mutLBSgene (Approved drugs only) |
| Drug status | DrugBank ID | Name | Type | Drug structure |
| Gene-centered ligand-gene interaction network |
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| Ligands binding to mutated ligand binding site of VNN1 go to BioLip |
| Ligand ID | Ligand short name | Ligand long name | PDB ID | PDB name | mutLBS | RRV | (2R)-2,4-DIHYDROXY-N-[(3S)-3-HYDROXY-4- PHENYLBUTYL]-3,3-DIMETHYLBUTANAMIDE | 4cyg | A | E79 M239 F338 | RRV | (2R)-2,4-DIHYDROXY-N-[(3S)-3-HYDROXY-4- PHENYLBUTYL]-3,3-DIMETHYLBUTANAMIDE | 4cyg | B | E79 M239 F338 |
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| Conservation information for LBS of VNN1 |
| Multiple alignments for O95497 in multiple species |
| LBS | AA sequence | # species | Species | A237 | IVFPTAWMNVL | 2 | Homo sapiens, Canis lupus familiaris | A237 | ILFPTAWMDVL | 1 | Mus musculus | A237 | ILFPTAWMNVL | 1 | Bos taurus | C211 | FGIFTCFDILF | 2 | Homo sapiens, Bos taurus | C211 | FGVFTCFDILF | 2 | Mus musculus, Canis lupus familiaris | E185 | NLFMGENQFNV | 2 | Homo sapiens, Canis lupus familiaris | E185 | NIFMGEDQFNV | 1 | Mus musculus | E185 | NLFLNEDQFNA | 1 | Bos taurus | E390 | GLHTVEGRYYL | 1 | Homo sapiens | E390 | GLHTVEGQYYL | 1 | Mus musculus | E390 | GLHVVEGRYYL | 1 | Canis lupus familiaris | E390 | GLHTVEGSYYL | 1 | Bos taurus | E79 | IIVTPEDGIYG | 3 | Mus musculus, Canis lupus familiaris, Bos taurus | E79 | IIVTPEDAIYG | 1 | Homo sapiens | F182 | HKQNLFMGENQ | 1 | Homo sapiens | F182 | HKQNIFMGEDQ | 1 | Mus musculus | F182 | HKHNLFMGENQ | 1 | Canis lupus familiaris | F182 | HKQNLFLNEDQ | 1 | Bos taurus | F212 | GIFTCFDILFH | 2 | Homo sapiens, Bos taurus | F212 | GVFTCFDILFH | 1 | Mus musculus | F212 | GVFTCFDILFY | 1 | Canis lupus familiaris | F338 | FKGTVFFDEFT | 1 | Homo sapiens | F338 | FQSIVFFDEFT | 1 | Mus musculus | F338 | FTGTAFFDEFT | 1 | Canis lupus familiaris | F338 | FTGIIFFDEFT | 1 | Bos taurus | K178 | VARYHKQNLFM | 1 | Homo sapiens | K178 | VARYHKQNIFM | 1 | Mus musculus | K178 | VARYHKHNLFM | 1 | Canis lupus familiaris | K178 | VARYHKQNLFL | 1 | Bos taurus | M239 | FPTAWMNVLPH | 3 | Homo sapiens, Canis lupus familiaris, Bos taurus | M239 | FPTAWMDVLPH | 1 | Mus musculus | M274 | YPSKKMTGSGI | 1 | Homo sapiens | M274 | NPSRRMTGSGI | 1 | Mus musculus | M274 | HPSKRMTGSGI | 1 | Canis lupus familiaris | M274 | YPLKKMTGSGI | 1 | Bos taurus | W238 | VFPTAWMNVLP | 2 | Homo sapiens, Canis lupus familiaris | W238 | LFPTAWMDVLP | 1 | Mus musculus | W238 | LFPTAWMNVLP | 1 | Bos taurus |
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