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 HIST1H3A
Gene summary
Basic gene Info.Gene symbolHIST1H3A
Gene namehistone cluster 1, H3a
SynonymsH3/A|H3FA
CytomapUCSC genome browser: 6p22.1
Type of geneprotein-coding
RefGenesNM_003529.2,
DescriptionH3 histone family, member Ahistone 1, H3ahistone H3.1histone H3/a
Modification date20141207
dbXrefs MIM : 602810
HGNC : HGNC
Ensembl : ENSG00000275714
HPRD : 04155
Vega : OTTHUMG00000014418
ProteinUniProt: P68431
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_HIST1H3A
BioGPS: 8350
PathwayNCI Pathway Interaction Database: HIST1H3A
KEGG: HIST1H3A
REACTOME: HIST1H3A
Pathway Commons: HIST1H3A
ContextiHOP: HIST1H3A
ligand binding site mutation search in PubMed: HIST1H3A
UCL Cancer Institute: HIST1H3A
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
GO:0006335DNA replication-dependent nucleosome assembly14718166
GO:0060968regulation of gene silencing16267050


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Ligand binding site mutations for HIST1H3A

Cancer type specific mutLBS sorted by frequency
LBSAAchange of nsSNVCancer type# samples
D78F79CBLCA1
R64R64SLUSC1
L66L66PSTAD1
R117A115SSTAD1
D82,R84L83MUCEC1
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 HIST1H3A
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
R64R64S-1.3943589
R84L83M-1.3409055
D82L83M-1.3409055
L66L66P-1.3328941
D78F79C-1.135569
R117A115S-0.6174469
(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 HIST1H3A from PDB

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Differential gene expression and gene-gene network for HIST1H3A
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 HIST1H3A and the right PPI network was created from samples without mutations in the LBS of HIST1H3A. 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 HIST1H3A
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 HIST1H3A
Drug information targeting mutLBSgene (Approved drugs only)
Drug statusDrugBank IDNameTypeDrug structure

Gene-centered ligand-gene interaction network

Ligands binding to mutated ligand binding site of HIST1H3A go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS


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Conservation information for LBS of HIST1H3A
Multiple alignments for P68431 in multiple species
LBSAA sequence# speciesSpecies
A48RPGTVALREIR6Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Arabidopsis thaliana, Oryza sativa subsp. japonica
D78REIAQDFKTDL5Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Oryza sativa subsp. japonica
D78REIAQDYKTDL1Arabidopsis thaliana
D82QDFKTDLRFQS5Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Oryza sativa subsp. japonica
D82QDYKTDLRFQS1Arabidopsis thaliana
F85KTDLRFQSSAV4Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster
F85KTDLRFQSHAV2Arabidopsis thaliana, Oryza sativa subsp. japonica
G45HRYRPGTVALR6Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Arabidopsis thaliana, Oryza sativa subsp. japonica
H40GVKKPHRYRPG6Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Arabidopsis thaliana, Oryza sativa subsp. japonica
K123VTIMPKDIQLA5Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Oryza sativa subsp. japonica
K123VTIMPKDVQLA1Arabidopsis thaliana
K38TGGVKKPHRYR6Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Arabidopsis thaliana, Oryza sativa subsp. japonica
K57IRRYQKSTELL4Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster
K57IRKYQKSTELL2Arabidopsis thaliana, Oryza sativa subsp. japonica
K65ELLIRKLPFQR6Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Arabidopsis thaliana, Oryza sativa subsp. japonica
L66LLIRKLPFQRL6Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Arabidopsis thaliana, Oryza sativa subsp. japonica
M121KRVTIMPKDIQ5Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Oryza sativa subsp. japonica
M121KRVTIMPKDVQ1Arabidopsis thaliana
P44PHRYRPGTVAL6Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Arabidopsis thaliana, Oryza sativa subsp. japonica
P67LIRKLPFQRLV6Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Arabidopsis thaliana, Oryza sativa subsp. japonica
Q77VREIAQDFKTD5Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Oryza sativa subsp. japonica
Q77VREIAQDYKTD1Arabidopsis thaliana
Q86TDLRFQSSAVM4Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster
Q86TDLRFQSHAVL2Arabidopsis thaliana, Oryza sativa subsp. japonica
R117AIHAKRVTIMP6Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Arabidopsis thaliana, Oryza sativa subsp. japonica
R41VKKPHRYRPGT6Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Arabidopsis thaliana, Oryza sativa subsp. japonica
R43KPHRYRPGTVA6Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Arabidopsis thaliana, Oryza sativa subsp. japonica
R50GTVALREIRRY4Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster
R50GTVALREIRKY2Arabidopsis thaliana, Oryza sativa subsp. japonica
R54LREIRRYQKST4Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster
R54LREIRKYQKST2Arabidopsis thaliana, Oryza sativa subsp. japonica
R64TELLIRKLPFQ6Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Arabidopsis thaliana, Oryza sativa subsp. japonica
R70KLPFQRLVREI6Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Arabidopsis thaliana, Oryza sativa subsp. japonica
R73FQRLVREIAQD6Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Arabidopsis thaliana, Oryza sativa subsp. japonica
R84FKTDLRFQSSA4Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster
R84YKTDLRFQSHA1Arabidopsis thaliana
R84FKTDLRFQSHA1Oryza sativa subsp. japonica
S87DLRFQSSAVMA4Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster
S87DLRFQSHAVLA2Arabidopsis thaliana, Oryza sativa subsp. japonica
T119HAKRVTIMPKD6Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Arabidopsis thaliana, Oryza sativa subsp. japonica
T46RYRPGTVALRE6Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Arabidopsis thaliana, Oryza sativa subsp. japonica
V118IHAKRVTIMPK6Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Arabidopsis thaliana, Oryza sativa subsp. japonica
V47YRPGTVALREI6Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Arabidopsis thaliana, Oryza sativa subsp. japonica
Y42KKPHRYRPGTV6Homo sapiens, Mus musculus, Danio rerio, Drosophila melanogaster, Arabidopsis thaliana, Oryza sativa subsp. japonica


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