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 PREP
Gene summary
Basic gene Info.Gene symbolPREP
Gene nameprolyl endopeptidase
CytomapUCSC genome browser: 6q22
Type of geneprotein-coding
DescriptiondJ355L5.1 (prolyl endopeptidase)post-proline cleaving enzymeprolyl oligopeptidase
Modification date20141207
dbXrefs MIM : 600400
Ensembl : ENSG00000085377
HPRD : 02673
Vega : OTTHUMG00000015297
ProteinUniProt: P48147
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_PREP
BioGPS: 5550
PathwayNCI Pathway Interaction Database: PREP
Pathway Commons: PREP
ContextiHOP: PREP
ligand binding site mutation search in PubMed: PREP
UCL Cancer Institute: PREP
Assigned class in mutLBSgeneDBB: This gene belongs to targetable_mutLBSgenes.

Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez

Ligand binding site mutations for PREP
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
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 PREP
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 PREP from PDB

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


Phenotype information for PREP
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type
umls:C0002624Amnesia, Retrograde1Biomarker
umls:C0242656Disease Progression1Biomarker
umls:C0038356Stomach Neoplasms1Biomarker

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

Pharmacological information for PREP
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
ExperimentalDB016841-Hydroxy-1-Thio-GlycerolSmall molecule
ExperimentalDB01769Double Oxidized CysteineSmall molecule
ExperimentalDB03382S-Oxy CysteineSmall molecule
ExperimentalDB03535Z-Pro-ProlinalSmall molecule
ExperimentalDB03864MonothioglycerolSmall molecule
ExperimentalDB07148(6S)-1-chloro-3-[(4-fluorobenzyl)oxy]-6-(pyrrolidin-1-ylcarbonyl)pyrrolo[1,2-a]pyrazin-4(6H)-oneSmall molecule
ExperimentalDB087381-{3-oxo-3-[(2S)-2-(pyrrolidin-1-ylcarbonyl)pyrrolidin-1-yl]propyl}-3-phenylquinoxalin-2(1H)-oneSmall molecule
ExperimentalDB087392-{3-[(2S)-4,4-difluoro-2-(pyrrolidin-1-ylcarbonyl)pyrrolidin-1-yl]-3-oxopropyl}-isoindole-1,3(2H)-dioneSmall molecule

Gene-centered ligand-gene interaction network

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

Conservation information for LBS of PREP
Multiple alignments for P48147 in multiple species
LBSAA sequence# speciesSpecies
C255SIREGCDPVNR2Homo sapiens, Bos taurus
C255SIWEGCDPVNR2Mus musculus, Rattus norvegicus
F173LERVKFSCMAW2Homo sapiens, Bos taurus
F173LERVKFTCMAW2Mus musculus, Rattus norvegicus
F476YGYGGFNISIT4Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus
G254LSIREGCDPVN2Homo sapiens, Bos taurus
G254LSIWEGCDPVN2Mus musculus, Rattus norvegicus
I591FHKYTIGHAWT2Homo sapiens, Bos taurus
I591FHKFTIGHAWT2Mus musculus, Rattus norvegicus
M235DEPKWMGGAEL4Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus
R252VLLSIREGCDP2Homo sapiens, Bos taurus
R252VLLSIWEGCDP2Mus musculus, Rattus norvegicus
R643ADHDDRVVPLH4Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus
S554TINGGSNGGLL4Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus
V580IAQVGVMDMLK4Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus
V644DHDDRVVPLHS4Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus
W595TIGHAWTTDYG4Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus
Y599AWTTDYGCSDS2Homo sapiens, Rattus norvegicus
Y599AWTTDYGCSDN1Bos taurus
Y599AWTTDYGCSDT1Mus musculus

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