mutLBSgeneDB |
Gene summary for TULP1 |
Gene summary |
Basic gene Info. | Gene symbol | TULP1 |
Gene name | tubby like protein 1 | |
Synonyms | LCA15|RP14|TUBL1 | |
Cytomap | UCSC genome browser: 6p21.3 | |
Type of gene | protein-coding | |
RefGenes | NM_001289395.1, NM_003322.4, | |
Description | tubby-related protein 1 | |
Modification date | 20141219 | |
dbXrefs | MIM : 602280 | |
HGNC : HGNC | ||
Ensembl : ENSG00000112041 | ||
HPRD : 03788 | ||
Vega : OTTHUMG00000014575 | ||
Protein | UniProt: O00294 go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_TULP1 | |
BioGPS: 7287 | ||
Pathway | NCI Pathway Interaction Database: TULP1 | |
KEGG: TULP1 | ||
REACTOME: TULP1 | ||
Pathway Commons: TULP1 | ||
Context | iHOP: TULP1 | |
ligand binding site mutation search in PubMed: TULP1 | ||
UCL Cancer Institute: TULP1 | ||
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:0050766 | positive regulation of phagocytosis | 19837063 |
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Ligand binding site mutations for TULP1 |
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 | R400 | R400W | BLCA | 1 | Y501 | P499S | HNSC | 1 | R508 | V509M | HNSC | 1 | K369 | G368W | LUSC | 1 | K489 | N490K | OV | 1 | R342 | R342L | SKCM | 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 TULP1 |
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 | Y501 | P499S | -1.5209634 | K489 | N490K | -0.85851335 | R342 | R342L | -0.61397212 | R400 | R400W | -0.42653033 | K369 | G368W | -0.38436333 | R508 | V509M | -0.33469241 |
(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 TULP1 from PDB |
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Differential gene expression and gene-gene network for TULP1 |
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 TULP1 |
Gene level disease information (DisGeNet) |
Disease ID | Disease name | # PubMed | Association type |
umls:C0035334 | Retinitis Pigmentosa | 10 | Biomarker, GeneticVariation |
umls:C1838603 | Retinitis Pigmentosa 14 | 1 | Biomarker, GeneticVariation |
Mutation level pathogenic information (ClinVar annotation) |
Allele ID | AA change | Clinical significance | Origin | Phenotype IDs |
39217 | R400W | Pathogenic | Germline | GeneReviews:NBK1298 MedGen:C3151206 OMIM:613843 Orphanet:ORPHA65 |
39218 | G368W | Pathogenic | Germline | GeneReviews:NBK1298 MedGen:C3151206 OMIM:613843 Orphanet:ORPHA65 |
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Pharmacological information for TULP1 |
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 TULP1 go to BioLip |
Ligand ID | Ligand short name | Ligand long name | PDB ID | PDB name | mutLBS |
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Conservation information for LBS of TULP1 |
Multiple alignments for O00294 in multiple species |
LBS | AA sequence | # species | Species |
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