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 PPIB
Gene summary
Basic gene Info.Gene symbolPPIB
Gene namepeptidylprolyl isomerase B (cyclophilin B)
SynonymsCYP-S1|CYPB|HEL-S-39|OI9|SCYLP
CytomapUCSC genome browser: 15q21-q22
Type of geneprotein-coding
RefGenesNM_000942.4,
DescriptionPPIase BS-cyclophilincyclophilin-like proteinepididymis secretory protein Li 39peptidyl-prolyl cis-trans isomerase Brotamase B
Modification date20141222
dbXrefs MIM : 123841
HGNC : HGNC
Ensembl : ENSG00000166794
HPRD : 00458
Vega : OTTHUMG00000133018
ProteinUniProt: P23284
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_PPIB
BioGPS: 5479
PathwayNCI Pathway Interaction Database: PPIB
KEGG: PPIB
REACTOME: PPIB
Pathway Commons: PPIB
ContextiHOP: PPIB
ligand binding site mutation search in PubMed: PPIB
UCL Cancer Institute: PPIB
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:0061077chaperone-mediated protein folding22665516


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Ligand binding site mutations for PPIB
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
K41K41ILUSC1
R95F93LUCEC1
F153T155MUCEC1
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 PPIB
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
R95F93L-0.97506098
F153T155M-0.38084343
K41K41I-0.24320457
(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 PPIB from PDB

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Differential gene expression and gene-gene network for PPIB
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 PPIB and the right PPI network was created from samples without mutations in the LBS of PPIB. 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 PPIB
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type
umls:C1850169Osteogenesis Imperfecta, Type IX2Biomarker, GeneticVariation
umls:C0019693HIV Infections1Biomarker

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

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Pharmacological information for PPIB
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
Approved|nutraceuticalDB00172L-ProlineSmall molecule
ExperimentalDB044471,4-DithiothreitolSmall molecule

Gene-centered ligand-gene interaction network

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


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Conservation information for LBS of PPIB
Multiple alignments for P23284 in multiple species
LBSAA sequence# speciesSpecies
A141GWVSMANAGKD5Homo sapiens, Gallus gallus, Mus musculus, Rattus norvegicus, Bos taurus
A141GRLSMANRGKN1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
A141GVLSMANAGPN1Arabidopsis thaliana
A141GLLSMANAGPD1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
A141GWLSMANAGED1Caenorhabditis elegans
A141GWLSMANAGAD1Caenorhabditis elegans
A143VSMANAGKDTN5Homo sapiens, Gallus gallus, Mus musculus, Rattus norvegicus, Bos taurus
A143LSMANRGKNTN1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
A143LSMANAGPNTN1Arabidopsis thaliana
A143LSMANAGPDSN1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
A143LSMANAGEDTN1Caenorhabditis elegans
A143LSMANAGADTN1Caenorhabditis elegans
F100RVIKDFMIQGG5Homo sapiens, Gallus gallus, Mus musculus, Rattus norvegicus, Bos taurus
F100RVIPNFMIQGG2Saccharomyces cerevisiae (strain ATCC 204508 / S288c), Schizosaccharomyces pombe (strain 972 / ATCC 24843)
F100RVIRDFMIQGG1Arabidopsis thaliana
F100RVIENFMIQGG1Caenorhabditis elegans
F100RVIADFMIQGG1Caenorhabditis elegans
F153NGSQFFITTVK7Homo sapiens, Schizosaccharomyces pombe (strain 972 / ATCC 24843), Gallus gallus, Mus musculus, Rattus norvegicus, Bos taurus, Caenorhabditis elegans
F153NGSQFFITTVP1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
F153NGSQFFICTIK1Arabidopsis thaliana
F153NGSQFFITTAK1Caenorhabditis elegans
G112FTRGDGTGGKS5Homo sapiens, Gallus gallus, Mus musculus, Rattus norvegicus, Bos taurus
G112FTRGDGTGGRS2Caenorhabditis elegans, Caenorhabditis elegans
G112FTHRSGIGGKS1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
G112FEKGNGTGGKS1Arabidopsis thaliana
G112ITKGDGTGGKS1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
G39DEKKKG-----2Homo sapiens, Bos taurus
G39NDKKKG-----2Mus musculus, Rattus norvegicus
G39EDTAED-----1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
G39NHRCFSVQSNA1Arabidopsis thaliana
G39---NRG-----1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
G39DERKKG-----1Gallus gallus
G39--EARG-----1Caenorhabditis elegans
G39GDDAKG-----1Caenorhabditis elegans
H166WLDGKHVVFGK6Homo sapiens, Gallus gallus, Mus musculus, Rattus norvegicus, Bos taurus, Caenorhabditis elegans
H166WLDGKHVVFGE1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
H166WLDGRHVVFGQ1Arabidopsis thaliana
H166WLDGHHVVFGE1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
H166WLDGRHVVFGK1Caenorhabditis elegans
K129PDENFKLKHYG5Homo sapiens, Gallus gallus, Mus musculus, Rattus norvegicus, Bos taurus
K129KDENFDVKHDK1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
K129KDENFKLSHVG1Arabidopsis thaliana
K129PDENFKLSHQR1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
K129EDENFKLQHYG1Caenorhabditis elegans
K129ADENFKLKHYG1Caenorhabditis elegans
K215PFAIAKE----5Homo sapiens, Gallus gallus, Mus musculus, Rattus norvegicus, Bos taurus
K215KAEASEAAHDE1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
K215A----------1Arabidopsis thaliana
K215---VEDDGTDE1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
K215PFTVARAGVN-1Caenorhabditis elegans
K215PFSVEREAVV-1Caenorhabditis elegans
K37AADEKKKG---2Homo sapiens, Bos taurus
K37VANDKKKG---2Mus musculus, Rattus norvegicus
K37AKEDTAED---1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
K37KRNHRCFSVQS1Arabidopsis thaliana
K37-----NRG---1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
K37RADERKKG---1Gallus gallus
K37----EARG---1Caenorhabditis elegans
K37AQGDDAKG---1Caenorhabditis elegans
K38ADEKKKG----2Homo sapiens, Bos taurus
K38ANDKKKG----2Mus musculus, Rattus norvegicus
K38KEDTAED----1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
K38RNHRCFSVQSN1Arabidopsis thaliana
K38----NRG----1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
K38ADERKKG----1Gallus gallus
K38---EARG----1Caenorhabditis elegans
K38QGDDAKG----1Caenorhabditis elegans
K41----PKVTVKV4Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus
K41----PEITHKV1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
K41TEPQSKITHKV1Arabidopsis thaliana
K41----PKVTDTV1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
K41----PKVTAKV1Gallus gallus
K41----PRVTDKV1Caenorhabditis elegans
K41----PKVTDKV1Caenorhabditis elegans
K67IGLFGKTVPKT4Schizosaccharomyces pombe (strain 972 / ATCC 24843), Gallus gallus, Bos taurus, Caenorhabditis elegans
K67FGLFGKTVPKT3Homo sapiens, Mus musculus, Rattus norvegicus
K67MGLYGLTTPQT1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
K67IGLYGDDVPQT1Arabidopsis thaliana
K67IGLFGEVVPKT1Caenorhabditis elegans
L162VKTAWLDGKHV3Homo sapiens, Gallus gallus, Bos taurus
L162VKTSWLDGKHV2Mus musculus, Rattus norvegicus
L162VPCPWLDGKHV1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
L162IKTSWLDGRHV1Arabidopsis thaliana
L162VKTPWLDGHHV1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
L162AKTSWLDGKHV1Caenorhabditis elegans
L162VKTPWLDGRHV1Caenorhabditis elegans
N142WVSMANAGKDT5Homo sapiens, Gallus gallus, Mus musculus, Rattus norvegicus, Bos taurus
N142RLSMANRGKNT1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
N142VLSMANAGPNT1Arabidopsis thaliana
N142LLSMANAGPDS1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
N142WLSMANAGEDT1Caenorhabditis elegans
N142WLSMANAGADT1Caenorhabditis elegans
P40-----PKVTVK4Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus
P40-----PEITHK1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
P40VTEPQSKITHK1Arabidopsis thaliana
P40-----PKVTDT1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
P40-----PKVTAK1Gallus gallus
P40-----PRVTDK1Caenorhabditis elegans
P40-----PKVTDK1Caenorhabditis elegans
Q103KDFMIQGGDFT5Homo sapiens, Gallus gallus, Mus musculus, Rattus norvegicus, Bos taurus
Q103PNFMIQGGDFT1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Q103RDFMIQGGDFE1Arabidopsis thaliana
Q103PNFMIQGGDIT1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
Q103ENFMIQGGDFT1Caenorhabditis elegans
Q103ADFMIQGGDFT1Caenorhabditis elegans
Q151DTNGSQFFITT7Homo sapiens, Gallus gallus, Mus musculus, Rattus norvegicus, Bos taurus, Caenorhabditis elegans, Caenorhabditis elegans
Q151NTNGSQFFITT1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Q151NTNGSQFFICT1Arabidopsis thaliana
Q151DSNGSQFFITT1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
R95NSKFHRVIKDF3Homo sapiens, Mus musculus, Rattus norvegicus
R95NSIFHRVIPNF1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
R95GSTFHRVIRDF1Arabidopsis thaliana
R95GSIFHRVIPNF1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
R95GSKFHRVIKDF1Gallus gallus
R95DSKFHRVIKDF1Bos taurus
R95GSKFHRVIENF1Caenorhabditis elegans
R95GSKFHRVIADF1Caenorhabditis elegans
T68GLFGKTVPKTV5Homo sapiens, Gallus gallus, Mus musculus, Rattus norvegicus, Bos taurus
T68GLFGKTVPKTA2Schizosaccharomyces pombe (strain 972 / ATCC 24843), Caenorhabditis elegans
T68GLYGLTTPQTV1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
T68GLYGDDVPQTV1Arabidopsis thaliana
T68GLFGEVVPKTV1Caenorhabditis elegans
W161TVKTAWLDGKH3Homo sapiens, Gallus gallus, Bos taurus
W161TVKTSWLDGKH2Mus musculus, Rattus norvegicus
W161TVPCPWLDGKH1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
W161TIKTSWLDGRH1Arabidopsis thaliana
W161TVKTPWLDGHH1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
W161TAKTSWLDGKH1Caenorhabditis elegans
W161TVKTPWLDGRH1Caenorhabditis elegans


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