|
mutLBSgeneDB |
| |
| |
| |
| |
| |
| |
|
| Gene summary for PRKCD |
 Gene summary |
| Basic gene Info. | Gene symbol | PRKCD |
| Gene name | protein kinase C, delta | |
| Synonyms | ALPS3|CVID9|MAY1|PKCD|nPKC-delta | |
| Cytomap | UCSC genome browser: 3p21.31 | |
| Type of gene | protein-coding | |
| RefGenes | NM_006254.3, NM_212539.1, | |
| Description | protein kinase C delta VIIIprotein kinase C delta typetyrosine-protein kinase PRKCD | |
| Modification date | 20141222 | |
| dbXrefs | MIM : 176977 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000163932 | ||
| HPRD : 01501 | ||
| Vega : OTTHUMG00000133659 | ||
| Protein | UniProt: Q05655 go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_PRKCD | |
| BioGPS: 5580 | ||
| Pathway | NCI Pathway Interaction Database: PRKCD | |
| KEGG: PRKCD | ||
| REACTOME: PRKCD | ||
| Pathway Commons: PRKCD | ||
| Context | iHOP: PRKCD | |
| ligand binding site mutation search in PubMed: PRKCD | ||
| UCL Cancer Institute: PRKCD | ||
| Assigned class in mutLBSgeneDB | B: This gene belongs to targetable_mutLBSgenes. | |
| Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
| GO ID | GO Term | PubMed ID | GO:0006468 | protein phosphorylation | 16611985 | GO:0006915 | apoptotic process | 10770950 | GO:0018107 | peptidyl-threonine phosphorylation | 10770950 | GO:0042119 | neutrophil activation | 10770950 |
| Top |
| Ligand binding site mutations for PRKCD |
| Cancer type specific mutLBS sorted by frequency |
| LBS | AAchange of nsSNV | Cancer type | # samples | C175 | V174L | BLCA | 1 | R67 | R67C | COAD | 1 | C200 | C200Y | COAD | 1 | R67 | R67C | GBM | 1 | R67 | R67S | KIRC | 1 | P49 | P49S | SKCM | 1 | R67 | R67C | STAD | 1 | R6 | R6H | UCEC | 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 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. |
| LBS | AAchange of nsSNV | Relative stability change | P49 | P49S | -1.2765354 | R6 | R6H | -1.0138893 | R67 | R67S | -0.89081578 | C200 | C200Y | -0.73283402 | C175 | V174L | -0.69611968 | R67 | R67C | -0.64857273 |
| (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 |
| Top |
| 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) |
| Top |
| Top |
| Phenotype information for PRKCD |
| Gene level disease information (DisGeNet) |
| Disease ID | Disease name | # PubMed | Association type |
| umls:C0020538 | Hypertension | 3 | Biomarker |
| umls:C0011853 | Diabetes Mellitus, Experimental | 2 | Biomarker |
| umls:C0021841 | Intestinal Neoplasms | 1 | Biomarker |
| umls:C0235032 | Neurotoxicity Syndromes | 1 | Biomarker |
| umls:C0242422 | Parkinsonian Disorders | 1 | Therapeutic |
| Mutation level pathogenic information (ClinVar annotation) |
| Allele ID | AA change | Clinical significance | Origin | Phenotype IDs |
| Top |
| 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 status | DrugBank ID | Name | Type | Drug structure |
| Experimental | DB04376 | 13-Acetylphorbol | Small molecule |  |
| Approved | DB05013 | Ingenol Mebutate | Small molecule |  |
| Gene-centered ligand-gene interaction network |
 |
| Ligands binding to mutated ligand binding site of PRKCD go to BioLip |
| Ligand ID | Ligand short name | Ligand long name | PDB ID | PDB name | mutLBS | III | Peptide ligand (MET,ALA,LEU,TYR,SER,ILE,TYR,GLN,PRO,TYR,VAL,PHE,ALA) | 1yrk | A | R6 P49 R67 |
| Top |
| Conservation information for LBS of PRKCD |
| Multiple alignments for Q05655 in multiple species |
| LBS | AA sequence | # species | Species | A61 | KSTFDAHIYEG | 3 | Homo sapiens, Rattus norvegicus, Canis lupus familiaris | A61 | DQYRDRDHYGK | 1 | Drosophila melanogaster | A61 | EKCWDTAVAEG | 1 | Caenorhabditis elegans | A61 | KTTFDAHIYEG | 1 | Mus musculus | C172 | GQPTFCSVCKD | 2 | Homo sapiens, Canis lupus familiaris | C172 | GQPTFCSVCKE | 2 | Mus musculus, Rattus norvegicus | C172 | RQPTFCAFCNL | 1 | Drosophila melanogaster | C172 | RQPHFCSLCSD | 1 | Caenorhabditis elegans | C175 | TFCSVCKDFVW | 2 | Homo sapiens, Canis lupus familiaris | C175 | TFCSVCKEFVW | 2 | Mus musculus, Rattus norvegicus | C175 | TFCAFCNLFLW | 1 | Drosophila melanogaster | C175 | HFCSLCSDFMW | 1 | Caenorhabditis elegans | C189 | KQGYKCRQCNA | 4 | Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris | C189 | KQGYQCIICQT | 1 | Drosophila melanogaster | C189 | KQGYQCQLCSA | 1 | Caenorhabditis elegans | C192 | YKCRQCNAAIH | 4 | Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris | C192 | YQCIICQTVVH | 1 | Drosophila melanogaster | C192 | YQCQLCSAAVH | 1 | Caenorhabditis elegans | C200 | AIHKKCIDKII | 4 | Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris | C200 | VVHKKCHDKLL | 1 | Drosophila melanogaster | C200 | AVHKKCHEKVI | 1 | Caenorhabditis elegans | C208 | KIIGRCTGTAA | 2 | Homo sapiens, Canis lupus familiaris | C208 | KIIGRCTGTAT | 2 | Mus musculus, Rattus norvegicus | C208 | KLLGKCSGSVF | 1 | Drosophila melanogaster | C208 | KVIMQCPGSAK | 1 | Caenorhabditis elegans | D60 | WKSTFDAHIYE | 3 | Homo sapiens, Rattus norvegicus, Canis lupus familiaris | D60 | RDQYRDRDHYG | 1 | Drosophila melanogaster | D60 | WEKCWDTAVAE | 1 | Caenorhabditis elegans | D60 | WKTTFDAHIYE | 1 | Mus musculus | E13 | SFNSYELGSLQ | 2 | Mus musculus, Rattus norvegicus | E13 | AFNSYELGSLQ | 1 | Homo sapiens | E13 | KTSNSSSQRPR | 1 | Drosophila melanogaster | E13 | LRADVPVDLLP | 1 | Caenorhabditis elegans | E13 | AFTSYELGSLQ | 1 | Canis lupus familiaris | F121 | MSVQYFL---- | 2 | Homo sapiens, Canis lupus familiaris | F121 | MCVQYFL---- | 2 | Mus musculus, Rattus norvegicus | F121 | TGGGVYV---- | 1 | Drosophila melanogaster | F121 | AQTRHLKNAPD | 1 | Caenorhabditis elegans | F4 | --MAPFLRIAF | 2 | Homo sapiens, Canis lupus familiaris | F4 | --MAPFLRISF | 2 | Mus musculus, Rattus norvegicus | F4 | FTRAQVRKQKT | 1 | Drosophila melanogaster | F4 | AENACRLKLLR | 1 | Caenorhabditis elegans | H159 | HYIKNHEFIAT | 4 | Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris | H159 | HDINGHRFVAK | 1 | Drosophila melanogaster | H159 | HEIRGHQFVAT | 1 | Caenorhabditis elegans | H197 | CNAAIHKKCID | 4 | Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris | H197 | CQTVVHKKCHD | 1 | Drosophila melanogaster | H197 | CSAAVHKKCHE | 1 | Caenorhabditis elegans | H62 | STFDAHIYEGR | 3 | Homo sapiens, Rattus norvegicus, Canis lupus familiaris | H62 | QYRDRDHYGKH | 1 | Drosophila melanogaster | H62 | KCWDTAVAEGR | 1 | Caenorhabditis elegans | H62 | TTFDAHIYEGR | 1 | Mus musculus | K48 | TLVQKKPTMYP | 4 | Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris | K48 | GLSGASGASGA | 1 | Drosophila melanogaster | K48 | RLVQKKKTLYP | 1 | Caenorhabditis elegans | L122 | SVQYFL----E | 2 | Homo sapiens, Canis lupus familiaris | L122 | CVQYFL----E | 2 | Mus musculus, Rattus norvegicus | L122 | GGGVYV----- | 1 | Drosophila melanogaster | L122 | QTRHLKNAPDD | 1 | Caenorhabditis elegans | M51 | QKKPTMYPEWK | 4 | Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris | M51 | GASGASGARRD | 1 | Drosophila melanogaster | M51 | QKKKTLYPEWE | 1 | Caenorhabditis elegans | P49 | LVQKKPTMYPE | 4 | Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris | P49 | LSGASGASGAR | 1 | Drosophila melanogaster | P49 | LVQKKKTLYPE | 1 | Caenorhabditis elegans | R6 | MAPFLRISFNS | 2 | Mus musculus, Rattus norvegicus | R6 | MAPFLRIAFNS | 1 | Homo sapiens | R6 | RAQVRKQKTSN | 1 | Drosophila melanogaster | R6 | NACRLKLLRAD | 1 | Caenorhabditis elegans | R6 | MAPFLRIAFTS | 1 | Canis lupus familiaris | R67 | HIYEGRVIQIV | 4 | Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris | R67 | DHYGKHSFELP | 1 | Drosophila melanogaster | R67 | AVAEGRILQIV | 1 | Caenorhabditis elegans | T50 | VQKKPTMYPEW | 4 | Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris | T50 | SGASGASGARR | 1 | Drosophila melanogaster | T50 | VQKKKTLYPEW | 1 | Caenorhabditis elegans | Y52 | KKPTMYPEWKS | 3 | Homo sapiens, Rattus norvegicus, Canis lupus familiaris | Y52 | ASGASGARRDQ | 1 | Drosophila melanogaster | Y52 | KKKTLYPEWEK | 1 | Caenorhabditis elegans | Y52 | KKPTMYPEWKT | 1 | Mus musculus |
 |
Copyright © 2016-Present - The University of Texas Health Science Center at Houston |