mutLBSgeneDB |
Gene summary for ARF4 |
Gene summary |
Basic gene Info. | Gene symbol | ARF4 |
Gene name | ADP-ribosylation factor 4 | |
Synonyms | ARF2 | |
Cytomap | UCSC genome browser: 3p14.3 | |
Type of gene | protein-coding | |
RefGenes | NM_001660.3, | |
Description | ADP-ribosylation factor 2 | |
Modification date | 20141217 | |
dbXrefs | MIM : 601177 | |
HGNC : HGNC | ||
Ensembl : ENSG00000168374 | ||
HPRD : 03107 | ||
Vega : OTTHUMG00000158601 | ||
Protein | UniProt: P18085 go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_ARF4 | |
BioGPS: 378 | ||
Pathway | NCI Pathway Interaction Database: ARF4 | |
KEGG: ARF4 | ||
REACTOME: ARF4 | ||
Pathway Commons: ARF4 | ||
Context | iHOP: ARF4 | |
ligand binding site mutation search in PubMed: ARF4 | ||
UCL Cancer Institute: ARF4 | ||
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:0006471 | protein ADP-ribosylation | 1899243 | GO:0016477 | cell migration | 22004728 | GO:0031584 | activation of phospholipase D activity | 12446727 | GO:0043066 | negative regulation of apoptotic process | 19041174 | GO:0045944 | positive regulation of transcription from RNA polymerase II promoter | 12446727 | GO:2000377 | regulation of reactive oxygen species metabolic process | 19041174 |
Top |
Ligand binding site mutations for ARF4 |
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 | A27 | L25F | LUAD | 1 | E54 | N52D | SKCM | 1 | A27 | D26N | 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. |
Top |
Protein structure related information for ARF4 |
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 | A27 | L25F | -1.0737421 | E54 | N52D | -0.47758409 | A27 | D26N | -0.3073369 |
(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 ARF4 from PDB |
Top |
Differential gene expression and gene-gene network for ARF4 |
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 ARF4 |
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 ARF4 |
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. |
Gene-centered drug-gene interaction network |
Drug information targeting mutLBSgene (Approved drugs only) |
Drug status | DrugBank ID | Name | Type | Drug structure |
Experimental | DB04315 | Guanosine-5'-Diphosphate | Small molecule |
Gene-centered ligand-gene interaction network |
Ligands binding to mutated ligand binding site of ARF4 go to BioLip |
Ligand ID | Ligand short name | Ligand long name | PDB ID | PDB name | mutLBS | GDP | GUANOSINE-5'-DIPHOSPHATE | 1z6x | A | A27 | GDP | GUANOSINE-5'-DIPHOSPHATE | 1z6x | B | A27 | MG | MAGNESIUM(2+) | 1z6x | A | E54 | MG | MAGNESIUM(2+) | 1z6x | B | E54 |
Top |
Conservation information for LBS of ARF4 |
Multiple alignments for P18085 in multiple species |
LBS | AA sequence | # species | Species | A160 | VQATCATQGTG | 3 | Homo sapiens, Mus musculus, Rattus norvegicus | A160 | IQSTCATQGHG | 1 | Drosophila melanogaster | A27 | MVGLDAAGKTT | 4 | Homo sapiens, Drosophila melanogaster, Mus musculus, Rattus norvegicus | A28 | VGLDAAGKTTI | 4 | Homo sapiens, Drosophila melanogaster, Mus musculus, Rattus norvegicus | C159 | YVQATCATQGT | 3 | Homo sapiens, Mus musculus, Rattus norvegicus | C159 | FIQSTCATQGH | 1 | Drosophila melanogaster | D129 | FANKQDLPNAM | 4 | Homo sapiens, Drosophila melanogaster, Mus musculus, Rattus norvegicus | E54 | IGFNVETVEYK | 4 | Homo sapiens, Drosophila melanogaster, Mus musculus, Rattus norvegicus | G29 | GLDAAGKTTIL | 4 | Homo sapiens, Drosophila melanogaster, Mus musculus, Rattus norvegicus | K127 | LLFANKQDLPN | 3 | Homo sapiens, Mus musculus, Rattus norvegicus | K127 | LVFANKQDLPN | 1 | Drosophila melanogaster | K30 | LDAAGKTTILY | 4 | Homo sapiens, Drosophila melanogaster, Mus musculus, Rattus norvegicus | L130 | ANKQDLPNAMA | 3 | Homo sapiens, Mus musculus, Rattus norvegicus | L130 | ANKQDLPNAMT | 1 | Drosophila melanogaster | N126 | LLLFANKQDLP | 3 | Homo sapiens, Mus musculus, Rattus norvegicus | N126 | LLVFANKQDLP | 1 | Drosophila melanogaster | T161 | QATCATQGTGL | 3 | Homo sapiens, Mus musculus, Rattus norvegicus | T161 | QSTCATQGHGL | 1 | Drosophila melanogaster | T31 | DAAGKTTILYK | 4 | Homo sapiens, Drosophila melanogaster, Mus musculus, Rattus norvegicus | T32 | AAGKTTILYKL | 4 | Homo sapiens, Drosophila melanogaster, Mus musculus, Rattus norvegicus |
Copyright © 2016-Present - The University of Texas Health Science Center at Houston |