mutLBSgeneDB |
Gene summary for RAB3B |
Gene summary |
Basic gene Info. | Gene symbol | RAB3B |
Gene name | RAB3B, member RAS oncogene family | |
Synonyms | - | |
Cytomap | UCSC genome browser: 1p32-p31 | |
Type of gene | protein-coding | |
RefGenes | NM_002867.3, | |
Description | brain antigen RAB3Bras-related protein Rab-3B | |
Modification date | 20141207 | |
dbXrefs | MIM : 179510 | |
HGNC : HGNC | ||
Ensembl : ENSG00000169213 | ||
HPRD : 01540 | ||
Vega : OTTHUMG00000008627 | ||
Protein | UniProt: P20337 go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_RAB3B | |
BioGPS: 5865 | ||
Pathway | NCI Pathway Interaction Database: RAB3B | |
KEGG: RAB3B | ||
REACTOME: RAB3B | ||
Pathway Commons: RAB3B | ||
Context | iHOP: RAB3B | |
ligand binding site mutation search in PubMed: RAB3B | ||
UCL Cancer Institute: RAB3B | ||
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:0006184 | GTP catabolic process | 24891604 | GO:0051586 | positive regulation of dopamine uptake involved in synaptic transmission | 20007772 | GO:0097494 | regulation of vesicle size | 20007772 |
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Ligand binding site mutations for RAB3B |
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 | S37 | S37Y | BLCA | 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 RAB3B |
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 | S37 | S37Y | -0.005531937 |
(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 RAB3B from PDB |
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Differential gene expression and gene-gene network for RAB3B |
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 RAB3B |
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 RAB3B |
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 RAB3B go to BioLip |
Ligand ID | Ligand short name | Ligand long name | PDB ID | PDB name | mutLBS | GDP | GUANOSINE-5'-DIPHOSPHATE | 3dz8 | A | S37 |
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Conservation information for LBS of RAB3B |
Multiple alignments for P20337 in multiple species |
LBS | AA sequence | # species | Species | A166 | FFEASAKENIS | 4 | Homo sapiens, Rattus norvegicus, Mus musculus, Bos taurus | D138 | VGNKCDMEEER | 4 | Homo sapiens, Rattus norvegicus, Mus musculus, Bos taurus | G34 | GNSSVGKTSFL | 4 | Homo sapiens, Rattus norvegicus, Mus musculus, Bos taurus | K136 | ILVGNKCDMEE | 4 | Homo sapiens, Rattus norvegicus, Mus musculus, Bos taurus | K167 | FEASAKENISV | 4 | Homo sapiens, Rattus norvegicus, Mus musculus, Bos taurus | K35 | NSSVGKTSFLF | 4 | Homo sapiens, Rattus norvegicus, Mus musculus, Bos taurus | M139 | GNKCDMEEERV | 4 | Homo sapiens, Rattus norvegicus, Mus musculus, Bos taurus | N135 | VILVGNKCDME | 4 | Homo sapiens, Rattus norvegicus, Mus musculus, Bos taurus | S165 | DFFEASAKENI | 4 | Homo sapiens, Rattus norvegicus, Mus musculus, Bos taurus | S32 | IIGNSSVGKTS | 4 | Homo sapiens, Rattus norvegicus, Mus musculus, Bos taurus | S37 | SVGKTSFLFRY | 4 | Homo sapiens, Rattus norvegicus, Mus musculus, Bos taurus | T36 | SSVGKTSFLFR | 4 | Homo sapiens, Rattus norvegicus, Mus musculus, Bos taurus | V33 | IGNSSVGKTSF | 4 | Homo sapiens, Rattus norvegicus, Mus musculus, Bos taurus |
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