mutLBSgeneDB

mutLBSgeneDB
mutated Ligand Binding Site gene DataBase

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Gene Summary

Ligand Binding Site Mutation Information

Protein Structure Related Information

Gene Expression and Gene-Gene Network

Phenotype Information

Pharmacological Information

Conservation Information for LBS

Gene summary for ARF1
Gene summary
Basic gene Info.Gene symbolARF1
Gene nameADP-ribosylation factor 1
Synonyms-
CytomapUCSC genome browser: 1q42
Type of geneprotein-coding
RefGenesNM_001024226.1,
NM_001024227.1,NM_001024228.1,NM_001658.3,
Description-
Modification date20141207
dbXrefs MIM : 103180
HGNC : HGNC
Ensembl : ENSG00000143761
HPRD : 00054
Vega : OTTHUMG00000037595
ProteinUniProt: P84077
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ARF1
BioGPS: 375
PathwayNCI Pathway Interaction Database: ARF1
KEGG: ARF1
REACTOME: ARF1
Pathway Commons: ARF1
ContextiHOP: ARF1
ligand binding site mutation search in PubMed: ARF1
UCL Cancer Institute: ARF1
Assigned class in mutLBSgeneDBC: This gene just belongs to mutLBSgenes.

Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO IDGO TermPubMed ID


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Ligand binding site mutations for ARF1
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
LBSAAchange of nsSNVCancer type# samples
W78R79HSTAD1
D26L25MUCEC1
N126A125TUCEC1
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 ARF1
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.
LBSAAchange of nsSNVRelative stability change
W78R79H-1.2266683
D26L25M-1.031326
N126A125T-0.90357411
(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 ARF1 from PDB

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Differential gene expression and gene-gene network for ARF1
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)
* Left PPI network was created from samples with mutations in the LBS of ARF1 and the right PPI network was created from samples without mutations in the LBS of ARF1. Only genes with p-value < 0.05 are shown.
Red circle: input gene. Orange circle: LBSgene. Blue circle: other gene.


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Phenotype information for ARF1
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type

Mutation level pathogenic information (ClinVar annotation)
Allele IDAA changeClinical significanceOriginPhenotype IDs

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Pharmacological information for ARF1

Gene-centered drug-gene interaction network
Drug information targeting mutLBSgene (Approved drugs only)
Drug statusDrugBank IDNameTypeDrug structure
ExperimentalDB027741,3-PropandiolSmall molecule
ExperimentalDB04077GlycerolSmall molecule
ExperimentalDB04121Guanosine-3'-Monophosphate-5'-DiphosphateSmall molecule
ExperimentalDB04137Guanosine-5'-TriphosphateSmall molecule
ExperimentalDB04315Guanosine-5'-DiphosphateSmall molecule
ExperimentalDB073481,6,7,8,9,11A,12,13,14,14A-DECAHYDRO-1,13-DIHYDROXY-6-METHYL-4H-CYCLOPENT[F]OXACYCLOTRIDECIN-4-ONESmall molecule
ExperimentalDB08231MYRISTIC ACIDSmall molecule

Gene-centered ligand-gene interaction network

Ligands binding to mutated ligand binding site of ARF1 go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS
GDPGUANOSINE-5'-DIPHOSPHATE1hurAD26 N126
GTPGTP4hmyCD26 N126
GDPGUANOSINE-5'-DIPHOSPHATE1hurBN126
GDPGUANOSINE-5'-DIPHOSPHATE1re0AN126
GDPGUANOSINE-5'-DIPHOSPHATE1u81AN126
AFBBREFELDIN A1re0AW78


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Conservation information for LBS of ARF1
Multiple alignments for P84077 in multiple species
LBSAA sequence# speciesSpecies
A160IQATCATSGDG6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
A27MVGLDAAGKTT6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
A28VGLDAAGKTTI6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
C159YIQATCATSGD6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
D129FANKQDLPNAM5Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
D129FANKQDLPQAM1Caenorhabditis elegans
D26LMVGLDAAGKT6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
D67SFTVWDVGGQD6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
E54IGFNVETVEYK6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
F51IPTIGFNVETV6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
G29GLDAAGKTTIL6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
G50TIPTIGFNVET6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
I46EIVTTIPTIGF6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
I74GGQDKIRPLWR6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
K127LVFANKQDLPN4Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus
K127LVFANKQDLPQ1Caenorhabditis elegans
K127LIFANKQDLPN1Drosophila melanogaster
K30LDAAGKTTILY6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
L130ANKQDLPNAMN5Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
L130ANKQDLPQAMN1Caenorhabditis elegans
N126LLVFANKQDLP5Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus
N126LLIFANKQDLP1Drosophila melanogaster
N52PTIGFNVETVE6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
P47IVTTIPTIGFN6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
T161QATCATSGDGL6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
T31DAAGKTTILYK6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
T32AAGKTTILYKL6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
T45GEIVTTIPTIG6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
T48VTTIPTIGFNV6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
T64KNISFTVWDVG6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
V53TIGFNVETVEY6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
V65NISFTVWDVGG6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
W66ISFTVWDVGGQ6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
W78KIRPLWRHYFQ6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster
Y81PLWRHYFQNTQ6Homo sapiens, Caenorhabditis elegans, Bos taurus, Mus musculus, Rattus norvegicus, Drosophila melanogaster


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