|
mutLBSgeneDB |
| |
| |
| |
| |
| |
| |
|
| Gene summary for RAB6B |
 Gene summary |
| Basic gene Info. | Gene symbol | RAB6B |
| Gene name | RAB6B, member RAS oncogene family | |
| Synonyms | - | |
| Cytomap | UCSC genome browser: 3q22.1 | |
| Type of gene | protein-coding | |
| RefGenes | NM_016577.3, | |
| Description | ras-related protein Rab-6Bsmall GTP-binding proteinsmall GTPase RAB6B | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 615852 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000154917 | ||
| HPRD : 11474 | ||
| Vega : OTTHUMG00000159749 | ||
| Protein | UniProt: Q9NRW1 go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_RAB6B | |
| BioGPS: 51560 | ||
| Pathway | NCI Pathway Interaction Database: RAB6B | |
| KEGG: RAB6B | ||
| REACTOME: RAB6B | ||
| Pathway Commons: RAB6B | ||
| Context | iHOP: RAB6B | |
| ligand binding site mutation search in PubMed: RAB6B | ||
| UCL Cancer Institute: RAB6B | ||
| 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 |
| Top |
| Ligand binding site mutations for RAB6B |
| 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 | D39 | D39N | COAD | 1 | G25 | G25W | LUAD | 1 | D129,K127 | T128M | LUAD | 1 | V24 | V24G | STAD | 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. |
| Top |
| Protein structure related information for RAB6B |
| 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 | D39 | D39N | -1.1670492 | V24 | V24G | -1.0848808 | G25 | G25W | -0.88041586 | K127 | T128M | -0.25767066 | D129 | T128M | -0.25767066 |
| (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 RAB6B from PDB |
| Top |
| Differential gene expression and gene-gene network for RAB6B |
| 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) |
| Top |
| Top |
| Phenotype information for RAB6B |
| 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 |
| Top |
| Pharmacological information for RAB6B |
| 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 RAB6B go to BioLip |
| Ligand ID | Ligand short name | Ligand long name | PDB ID | PDB name | mutLBS | GDP | GUANOSINE-5'-DIPHOSPHATE | 2e9s | A | V24 G25 D39 K127 D129 | GDP | GUANOSINE-5'-DIPHOSPHATE | 2e9s | B | V24 G25 D39 K127 D129 | GDP | GUANOSINE-5'-DIPHOSPHATE | 2fe4 | A | V24 G25 D39 K127 D129 | GSP | GUANOSINE 5'-[GAMMA-THIO]TRIPHOSPHATE | 2ffq | A | V24 G25 D39 K127 D129 | GDP | GUANOSINE-5'-DIPHOSPHATE | 2e9s | C | V24 G25 K127 D129 |
| Top |
| Conservation information for LBS of RAB6B |
| Multiple alignments for Q9NRW1 in multiple species |
| LBS | AA sequence | # species | Species | A157 | FIETSAKTGYN | 3 | Homo sapiens, Bos taurus, Mus musculus | A157 | FMETSTKAGYN | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | A157 | HMETSAKAGHN | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | D129 | VGNKTDLADKR | 4 | Homo sapiens, Bos taurus, Mus musculus, Schizosaccharomyces pombe (strain 972 / ATCC 24843) | D129 | VGNKSDLSDER | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | D39 | MYDSFDNTYQA | 3 | Homo sapiens, Bos taurus, Mus musculus | D39 | MYDTFDDHYQA | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | D39 | MYDQFDNTYQA | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | F38 | FMYDSFDNTYQ | 3 | Homo sapiens, Bos taurus, Mus musculus | F38 | FMYDTFDDHYQ | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | F38 | FMYDQFDNTYQ | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | G25 | GEQSVGKTSLI | 4 | Homo sapiens, Bos taurus, Mus musculus, Schizosaccharomyces pombe (strain 972 / ATCC 24843) | G25 | GEQGVGKTSLI | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | K127 | MLVGNKTDLAD | 3 | Homo sapiens, Bos taurus, Mus musculus | K127 | CIVGNKSDLSD | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | K127 | VLVGNKTDLAD | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | K158 | IETSAKTGYNV | 3 | Homo sapiens, Bos taurus, Mus musculus | K158 | METSTKAGYNV | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | K158 | METSAKAGHNV | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | K26 | EQSVGKTSLIT | 4 | Homo sapiens, Bos taurus, Mus musculus, Schizosaccharomyces pombe (strain 972 / ATCC 24843) | K26 | EQGVGKTSLIT | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | L130 | GNKTDLADKRQ | 4 | Homo sapiens, Bos taurus, Mus musculus, Schizosaccharomyces pombe (strain 972 / ATCC 24843) | L130 | GNKSDLSDERQ | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | N126 | IMLVGNKTDLA | 3 | Homo sapiens, Bos taurus, Mus musculus | N126 | LCIVGNKSDLS | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | N126 | IVLVGNKTDLA | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | N40 | YDSFDNTYQAT | 3 | Homo sapiens, Bos taurus, Mus musculus | N40 | YDTFDDHYQAT | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | N40 | YDQFDNTYQAT | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | S156 | MFIETSAKTGY | 3 | Homo sapiens, Bos taurus, Mus musculus | S156 | IFMETSTKAGY | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | S156 | MHMETSAKAGH | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | S23 | FLGEQSVGKTS | 4 | Homo sapiens, Bos taurus, Mus musculus, Schizosaccharomyces pombe (strain 972 / ATCC 24843) | S23 | FLGEQGVGKTS | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | S28 | SVGKTSLITRF | 4 | Homo sapiens, Bos taurus, Mus musculus, Schizosaccharomyces pombe (strain 972 / ATCC 24843) | S28 | GVGKTSLITRF | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | T27 | QSVGKTSLITR | 4 | Homo sapiens, Bos taurus, Mus musculus, Schizosaccharomyces pombe (strain 972 / ATCC 24843) | T27 | QGVGKTSLITR | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | V24 | LGEQSVGKTSL | 4 | Homo sapiens, Bos taurus, Mus musculus, Schizosaccharomyces pombe (strain 972 / ATCC 24843) | V24 | LGEQGVGKTSL | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | Y42 | SFDNTYQATIG | 3 | Homo sapiens, Bos taurus, Mus musculus | Y42 | TFDDHYQATIG | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | Y42 | QFDNTYQATIG | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) |
 |
Copyright © 2016-Present - The University of Texas Health Science Center at Houston |