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 CDC25B
Gene summary
Basic gene Info.Gene symbolCDC25B
Gene namecell division cycle 25B
CytomapUCSC genome browser: 20p13
Type of geneprotein-coding
DescriptionM-phase inducer phosphatase 2dual specificity phosphatase Cdc25B
Modification date20141207
dbXrefs MIM : 116949
Ensembl : ENSG00000101224
HPRD : 00307
Vega : OTTHUMG00000031764
ProteinUniProt: P30305
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CDC25B
BioGPS: 994
PathwayNCI Pathway Interaction Database: CDC25B
Pathway Commons: CDC25B
ContextiHOP: CDC25B
ligand binding site mutation search in PubMed: CDC25B
UCL Cancer Institute: CDC25B
Assigned class in mutLBSgeneDBC: This gene just belongs to mutLBSgenes.

Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO:0006468protein phosphorylation17332740

Ligand binding site mutations for CDC25B

Cancer type specific mutLBS sorted by frequency
LBSAAchange of nsSNVCancer type# samples
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.

Protein structure related information for CDC25B
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
(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 CDC25B from PDB

Differential gene expression and gene-gene network for CDC25B
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 CDC25B and the right PPI network was created from samples without mutations in the LBS of CDC25B. Only genes with p-value < 0.05 are shown.
Red circle: input gene. Orange circle: LBSgene. Blue circle: other gene.


Phenotype information for CDC25B
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type

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

Pharmacological information for CDC25B
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 statusDrugBank IDNameTypeDrug structure
ExperimentalDB01769Double Oxidized CysteineSmall molecule
ExperimentalDB03661Cysteinesulfonic AcidSmall molecule

Gene-centered ligand-gene interaction network

Ligands binding to mutated ligand binding site of CDC25B go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS

Conservation information for LBS of CDC25B
Multiple alignments for P30305 in multiple species
LBSAA sequence# speciesSpecies
C487ILIFHCEFSSE3Homo sapiens, Mus musculus, Rattus norvegicus
C498RGPRMCRFIRE3Homo sapiens, Mus musculus, Rattus norvegicus
D411DGKHQDLKYIS3Homo sapiens, Mus musculus, Rattus norvegicus
E460VNLPLERDAES1Homo sapiens
E460VNLPLERDAET1Mus musculus
E460VNLPLEPDAET1Rattus norvegicus
E488LIFHCEFSSER3Homo sapiens, Mus musculus, Rattus norvegicus
E492CEFSSERGPRM3Homo sapiens, Mus musculus, Rattus norvegicus
F489IFHCEFSSERG3Homo sapiens, Mus musculus, Rattus norvegicus
L412GKHQDLKYISP3Homo sapiens, Mus musculus, Rattus norvegicus
L459AVNLPLERDAE2Homo sapiens, Mus musculus
L459AVNLPLEPDAE1Rattus norvegicus
M519LYYPEMYILKG3Homo sapiens, Mus musculus, Rattus norvegicus
R493EFSSERGPRMC3Homo sapiens, Mus musculus, Rattus norvegicus
R499GPRMCRFIRER3Homo sapiens, Mus musculus, Rattus norvegicus
R502MCRFIRERDRA3Homo sapiens, Mus musculus, Rattus norvegicus
R506IRERDRAANDY2Mus musculus, Rattus norvegicus
R506IRERDRAVNDY1Homo sapiens
R562FRLKTRSWAGE3Homo sapiens, Mus musculus, Rattus norvegicus
S490FHCEFSSERGP3Homo sapiens, Mus musculus, Rattus norvegicus
S491HCEFSSERGPR3Homo sapiens, Mus musculus, Rattus norvegicus
T561NFRLKTRSWAG2Mus musculus, Rattus norvegicus
T561TFRLKTRSWAG1Homo sapiens

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