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 PRKCD
Gene summary
Basic gene Info.Gene symbolPRKCD
Gene nameprotein kinase C, delta
CytomapUCSC genome browser: 3p21.31
Type of geneprotein-coding
Descriptionprotein kinase C delta VIIIprotein kinase C delta typetyrosine-protein kinase PRKCD
Modification date20141222
dbXrefs MIM : 176977
Ensembl : ENSG00000163932
HPRD : 01501
Vega : OTTHUMG00000133659
ProteinUniProt: Q05655
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_PRKCD
BioGPS: 5580
PathwayNCI Pathway Interaction Database: PRKCD
Pathway Commons: PRKCD
ContextiHOP: PRKCD
ligand binding site mutation search in PubMed: PRKCD
UCL Cancer Institute: PRKCD
Assigned class in mutLBSgeneDBB: This gene belongs to targetable_mutLBSgenes.

Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO:0006468protein phosphorylation16611985
GO:0006915apoptotic process10770950
GO:0018107peptidyl-threonine phosphorylation10770950
GO:0042119neutrophil activation10770950

Ligand binding site mutations for PRKCD

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 PRKCD
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 PRKCD from PDB

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


Phenotype information for PRKCD
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type
umls:C0011853Diabetes Mellitus, Experimental2Biomarker
umls:C0021841Intestinal Neoplasms1Biomarker
umls:C0235032Neurotoxicity Syndromes1Biomarker
umls:C0242422Parkinsonian Disorders1Therapeutic

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

Pharmacological information for PRKCD
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
ExperimentalDB0437613-AcetylphorbolSmall molecule
ApprovedDB05013Ingenol MebutateSmall molecule

Gene-centered ligand-gene interaction network

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

Conservation information for LBS of PRKCD
Multiple alignments for Q05655 in multiple species
LBSAA sequence# speciesSpecies
A61KSTFDAHIYEG3Homo sapiens, Rattus norvegicus, Canis lupus familiaris
A61DQYRDRDHYGK1Drosophila melanogaster
A61EKCWDTAVAEG1Caenorhabditis elegans
A61KTTFDAHIYEG1Mus musculus
C172GQPTFCSVCKD2Homo sapiens, Canis lupus familiaris
C172GQPTFCSVCKE2Mus musculus, Rattus norvegicus
C172RQPTFCAFCNL1Drosophila melanogaster
C172RQPHFCSLCSD1Caenorhabditis elegans
C175TFCSVCKDFVW2Homo sapiens, Canis lupus familiaris
C175TFCSVCKEFVW2Mus musculus, Rattus norvegicus
C175TFCAFCNLFLW1Drosophila melanogaster
C175HFCSLCSDFMW1Caenorhabditis elegans
C189KQGYKCRQCNA4Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris
C189KQGYQCIICQT1Drosophila melanogaster
C189KQGYQCQLCSA1Caenorhabditis elegans
C192YKCRQCNAAIH4Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris
C192YQCIICQTVVH1Drosophila melanogaster
C192YQCQLCSAAVH1Caenorhabditis elegans
C200AIHKKCIDKII4Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris
C200VVHKKCHDKLL1Drosophila melanogaster
C200AVHKKCHEKVI1Caenorhabditis elegans
C208KIIGRCTGTAA2Homo sapiens, Canis lupus familiaris
C208KIIGRCTGTAT2Mus musculus, Rattus norvegicus
C208KLLGKCSGSVF1Drosophila melanogaster
C208KVIMQCPGSAK1Caenorhabditis elegans
D60WKSTFDAHIYE3Homo sapiens, Rattus norvegicus, Canis lupus familiaris
D60RDQYRDRDHYG1Drosophila melanogaster
D60WEKCWDTAVAE1Caenorhabditis elegans
D60WKTTFDAHIYE1Mus musculus
E13SFNSYELGSLQ2Mus musculus, Rattus norvegicus
E13AFNSYELGSLQ1Homo sapiens
E13KTSNSSSQRPR1Drosophila melanogaster
E13LRADVPVDLLP1Caenorhabditis elegans
E13AFTSYELGSLQ1Canis lupus familiaris
F121MSVQYFL----2Homo sapiens, Canis lupus familiaris
F121MCVQYFL----2Mus musculus, Rattus norvegicus
F121TGGGVYV----1Drosophila melanogaster
F121AQTRHLKNAPD1Caenorhabditis elegans
F4--MAPFLRIAF2Homo sapiens, Canis lupus familiaris
F4--MAPFLRISF2Mus musculus, Rattus norvegicus
F4FTRAQVRKQKT1Drosophila melanogaster
F4AENACRLKLLR1Caenorhabditis elegans
H159HYIKNHEFIAT4Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris
H159HDINGHRFVAK1Drosophila melanogaster
H159HEIRGHQFVAT1Caenorhabditis elegans
H197CNAAIHKKCID4Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris
H197CQTVVHKKCHD1Drosophila melanogaster
H197CSAAVHKKCHE1Caenorhabditis elegans
H62STFDAHIYEGR3Homo sapiens, Rattus norvegicus, Canis lupus familiaris
H62QYRDRDHYGKH1Drosophila melanogaster
H62KCWDTAVAEGR1Caenorhabditis elegans
H62TTFDAHIYEGR1Mus musculus
K48TLVQKKPTMYP4Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris
K48GLSGASGASGA1Drosophila melanogaster
K48RLVQKKKTLYP1Caenorhabditis elegans
L122SVQYFL----E2Homo sapiens, Canis lupus familiaris
L122CVQYFL----E2Mus musculus, Rattus norvegicus
L122GGGVYV-----1Drosophila melanogaster
L122QTRHLKNAPDD1Caenorhabditis elegans
M51QKKPTMYPEWK4Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris
M51GASGASGARRD1Drosophila melanogaster
M51QKKKTLYPEWE1Caenorhabditis elegans
P49LVQKKPTMYPE4Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris
P49LSGASGASGAR1Drosophila melanogaster
P49LVQKKKTLYPE1Caenorhabditis elegans
R6MAPFLRISFNS2Mus musculus, Rattus norvegicus
R6MAPFLRIAFNS1Homo sapiens
R6RAQVRKQKTSN1Drosophila melanogaster
R6NACRLKLLRAD1Caenorhabditis elegans
R6MAPFLRIAFTS1Canis lupus familiaris
R67HIYEGRVIQIV4Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris
R67DHYGKHSFELP1Drosophila melanogaster
R67AVAEGRILQIV1Caenorhabditis elegans
T50VQKKPTMYPEW4Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris
T50SGASGASGARR1Drosophila melanogaster
T50VQKKKTLYPEW1Caenorhabditis elegans
Y52KKPTMYPEWKS3Homo sapiens, Rattus norvegicus, Canis lupus familiaris
Y52ASGASGARRDQ1Drosophila melanogaster
Y52KKKTLYPEWEK1Caenorhabditis elegans
Y52KKPTMYPEWKT1Mus musculus

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