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 PGR
Gene summary
Basic gene Info.Gene symbolPGR
Gene nameprogesterone receptor
SynonymsNR3C3|PR
CytomapUCSC genome browser: 11q22-q23
Type of geneprotein-coding
RefGenesNM_000926.4,
NM_001202474.3,NM_001271161.2,NR_073141.2,NR_073142.2,
NR_073143.2,NM_001271162.1,
Descriptionnuclear receptor subfamily 3 group C member 3
Modification date20141207
dbXrefs MIM : 607311
HGNC : HGNC
Ensembl : ENSG00000082175
HPRD : 07077
Vega : OTTHUMG00000167531
ProteinUniProt: P06401
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_PGR
BioGPS: 5241
PathwayNCI Pathway Interaction Database: PGR
KEGG: PGR
REACTOME: PGR
Pathway Commons: PGR
ContextiHOP: PGR
ligand binding site mutation search in PubMed: PGR
UCL Cancer Institute: PGR
Assigned class in mutLBSgeneDBA: This gene has a literature evidence and it belongs to targetable_mutLBSgenes.
References showing study about ligand binding site mutation for PGR.1. Kubota, K., Cui, W., Dhakal, P., Wolfe, M. W., Rumi, M. K., Vivian, J. L., ... & Soares, M. J. (2016). Rethinking progesterone regulation of female reproductive cyclicity. Proceedings of the National Academy of Sciences,113(15), 4212-4217. 27035990

Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO IDGO TermPubMed ID
GO:0045944positive regulation of transcription from RNA polymerase II promoter17785366


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Ligand binding site mutations for PGR

Cancer type specific mutLBS sorted by frequency
LBSAAchange of nsSNVCancer type# samples
E723E723KBRCA1
L763G762VBRCA1
Q747,D745D746YCOAD1
M756S757ICOAD1
C584L582FGBM1
E723E723KHNSC1
G635L634RLUAD1
K588K588MLUAD1
M909S910FLUSC1
I751I751FOV1
M909,F905E907KSKCM1
R637R637LSKCM1
V912E911DSTAD1
R740R740QSTAD1
C567I566SUCEC1
K734S733YUCEC1
R623R623HUCEC1
R740R740QUCEC1
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 PGR
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
E723E723K-1.1997083
C567I566S-1.1449584
F905E907K-1.100191
M909E907K-1.100191
G635L634R-0.97735472
I751I751F-0.78755295
L763G762V-0.772838
D745D746Y-0.70773492
Q747D746Y-0.70773492
R637R637L-0.66149396
K734S733Y-0.65025483
K588K588M-0.59144382
R623R623H-0.57601158
V912E911D-0.5636496
C584L582F-0.55342392
M909S910F-0.38354356
M756S757I-0.24293248
R740R740Q-0.21716933
(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 PGR from PDB

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Differential gene expression and gene-gene network for PGR
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 PGR and the right PPI network was created from samples without mutations in the LBS of PGR. 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 PGR
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type
umls:C1458155Breast Neoplasms89AlteredExpression, Biomarker, GeneticVariation
umls:C0014175Endometriosis43AlteredExpression, Biomarker, GeneticVariation
umls:C0007097Carcinoma30AlteredExpression, Biomarker
umls:C0025286Meningioma16AlteredExpression, Biomarker
umls:C0014170Endometrial Neoplasms14AlteredExpression, Biomarker, GeneticVariation
umls:C0001418Adenocarcinoma11Biomarker
umls:C0024667Mammary Neoplasms, Animal2Biomarker, GeneticVariation
umls:C0024668Mammary Neoplasms, Experimental1Biomarker
umls:C0025500Mesothelioma1Biomarker
umls:C2825055Recurrence1Biomarker

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

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Pharmacological information for PGR
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|investigationalDB00294EtonogestrelSmall molecule
ApprovedDB00304DesogestrelSmall molecule
Approved|vet_approvedDB00351Megestrol acetateSmall molecule
Approved|investigationalDB00367LevonorgestrelSmall molecule
Approved|withdrawnDB00378DydrogesteroneSmall molecule
Approved|vet_approvedDB00396ProgesteroneSmall molecule
ApprovedDB00421SpironolactoneSmall molecule
ApprovedDB00588Fluticasone PropionateSmall molecule
Approved|investigationalDB00603Medroxyprogesterone acetateSmall molecule
ApprovedDB00717NorethisteroneSmall molecule
ApprovedDB00823Ethynodiol diacetateSmall molecule
Approved|investigationalDB00834MifepristoneSmall molecule
ApprovedDB00957NorgestimateSmall molecule
ApprovedDB01395DrospirenoneSmall molecule
ApprovedDB01406DanazolSmall molecule
ApprovedDB01431AllylestrenolSmall molecule
ExperimentalDB02998MethyltrienoloneSmall molecule
InvestigationalDB04787TanaprogetSmall molecule
InvestigationalDB05253ProellexSmall molecule
InvestigationalDB05366CDB-2914Small molecule
ApprovedDB06713NorelgestrominSmall molecule
ApprovedDB06789Hydroxyprogesterone caproateSmall molecule
ApprovedDB08867UlipristalSmall molecule

Gene-centered ligand-gene interaction network

Ligands binding to mutated ligand binding site of PGR go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS
ZNZINC(2+)2c7aAC567 C584
ZNZINC(2+)2c7aBC567 C584
2S0ULIPRISTAL ACETATE[(8S,11R,13S,14S,17R)-17-ACETYL-11-[4-(DIMETHYLAMINO) PHENYL]-13-METHYL-3-OXO-1,2,6,7,8,11,12,14,15,16- DECAHYDROCYCLOPENTA[A]PHENANTHREN-17-YL] ACETATE4oarAE723
AS04-[(11BETA,17BETA)-17-METHOXY-17-(METHOXYMETHYL)-3-OXOESTRA-4,9-DIEN-11-YL]BENZALDEHYDE OXIME2ovmAE723 M756
AS04-[(11BETA,17BETA)-17-METHOXY-17-(METHOXYMETHYL)-3-OXOESTRA-4,9-DIEN-11-YL]BENZALDEHYDE OXIME4a2jAE723 M756 M909
AS04-[(11BETA,17BETA)-17-METHOXY-17-(METHOXYMETHYL)-3-OXOESTRA-4,9-DIEN-11-YL]BENZALDEHYDE OXIME4a2jBE723 M756 M909
486MIFEPRISTONE2w8yAE723 M756 M909 V912
T98TANAPROGET1zucAF905
WOW2-CHLORO-4-{(2-METHYLBENZYL)[(3S)-1-(METHYLSULFONYL)PYRROLIDIN-3-YL]AMINO}BENZONITRILE3kbaBF905
NUCNucleic Acids2c7aAK588 G635 R637
NUCNucleic Acids2c7aBK588 R637
IIIPeptide ligand (GLY,LEU,GLU,ALA,ILE,ILE,ARG,LYS,ALA,LEU,MET)4oarAK734 R740 D745 I751
IIIPeptide ligand (GLY,LEU,GLU,ALA,ILE,ILE,ARG,LYS,ALA,LEU,MET,GLY,LYS)2ovhAK734 R740 I751
IIIPeptide ligand (LEU,GLU,ASP,ILE,ILE,ARG,LYS,ALA,LEU,MET,GLY)2ovmAK734 R740 Q747 I751
WOW2-CHLORO-4-{(2-METHYLBENZYL)[(3S)-1-(METHYLSULFONYL)PYRROLIDIN-3-YL]AMINO}BENZONITRILE3kbaAL763 F905
R1817BETA-HYDROXY-17-METHYLESTRA-4,9,11-TRIEN-3-ONE1e3kBM756
NDR(14BETA,17ALPHA)-17-ETHYNYL-17-HYDROXYESTR-4-EN-3-ONE1sqnBM756
AS04-[(11BETA,17BETA)-17-METHOXY-17-(METHOXYMETHYL)-3-OXOESTRA-4,9-DIEN-11-YL]BENZALDEHYDE OXIME2ovhAM756
NDR(14BETA,17ALPHA)-17-ETHYNYL-17-HYDROXYESTR-4-EN-3-ONE2w8yBM756
NOGNORGESTREL3d90AM756
MOFMOMETASONE FUROATE1sr7BM756 F905
T98TANAPROGET1zucBM756 F905
NOGNORGESTREL3d90BM756 F905
MOFMOMETASONE FUROATE1sr7AM756 F905 M909
OR82-CHLORO-N-[[4-(3,5-DIMETHYLISOXAZOL-4-YL)PHENYL]METHYL]-1,4-DIMETHYL-1H-PYRAZOLE-4-SULFONAMIDE3zr7BM756 F905 M909
ORBN-{(1R)-1-[4-(2-CHLORO-5-FLUOROPYRIDIN-3-YL)PHENYL]ETHYL}-3,5-DIMETHYLISOXAZOLE-4-SULFONAMIDE3zraBM756 F905 M909
ORC(R)-N-[1-[4-(3,5-DIMETHYLISOXAZOL-4-YL) PHENYL]ETHYL]-3,5-DIMETHYLISOXAZOLE-4-SULFONAMIDE3zrbBM756 F905 M909
A2K(8S,11R,13S,14S,16S,17S)-17-CYCLOPROPYLCARBONYL-16-ETHENYL-13-METHYL-11-(4-PYRIDINYLPHENYL)-2,6,7,8,11,12,14,15,16,17-DECAHYDRO-1H-CYCLOPENTA[A]PHENANTHREN-3-ONE4apuBM756 F905 M909 V912
30XN~2~-[4-CYANO-3-(TRIFLUOROMETHYL)PHENYL]-N,N-DIMETHYL-N~2~-(2,2,2-TRIFLUOROETHYL)-L-ALANINAMIDE3g8oAM756 L763 F905 M909
30XN~2~-[4-CYANO-3-(TRIFLUOROMETHYL)PHENYL]-N,N-DIMETHYL-N~2~-(2,2,2-TRIFLUOROETHYL)-L-ALANINAMIDE3g8oBM756 L763 F905 M909
GKK2-CHLORO-4-{[(3S)-1-METHYLPYRROLIDIN-3-YL][2-(TRIFLUOROMETHYL)BENZYL]AMINO}BENZONITRILE3hq5AM756 L763 F905 M909
GKK2-CHLORO-4-{[(3S)-1-METHYLPYRROLIDIN-3-YL][2-(TRIFLUOROMETHYL)BENZYL]AMINO}BENZONITRILE3hq5BM756 L763 F905 M909
OR82-CHLORO-N-[[4-(3,5-DIMETHYLISOXAZOL-4-YL)PHENYL]METHYL]-1,4-DIMETHYL-1H-PYRAZOLE-4-SULFONAMIDE3zr7AM756 L763 F905 M909
ORBN-{(1R)-1-[4-(2-CHLORO-5-FLUOROPYRIDIN-3-YL)PHENYL]ETHYL}-3,5-DIMETHYLISOXAZOLE-4-SULFONAMIDE3zraAM756 L763 F905 M909
STRPROGESTERONE1a28AM756 M909
STRPROGESTERONE1a28BM756 M909
R1817BETA-HYDROXY-17-METHYLESTRA-4,9,11-TRIEN-3-ONE1e3kAM756 M909
NDR(14BETA,17ALPHA)-17-ETHYNYL-17-HYDROXYESTR-4-EN-3-ONE1sqnAM756 M909
OR82-CHLORO-N-[[4-(3,5-DIMETHYLISOXAZOL-4-YL)PHENYL]METHYL]-1,4-DIMETHYL-1H-PYRAZOLE-4-SULFONAMIDE3zrbAM756 M909
OR82-CHLORO-N-[[4-(3,5-DIMETHYLISOXAZOL-4-YL)PHENYL]METHYL]-1,4-DIMETHYL-1H-PYRAZOLE-4-SULFONAMIDE4apuAM756 M909
NUCNucleic Acids2c7aAR623
NUCNucleic Acids2c7aBR623


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Conservation information for LBS of PGR
Multiple alignments for P06401 in multiple species
LBSAA sequence# speciesSpecies
C567LPQKICLICGD5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
C570KICLICGDEAS5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
C577DEASGCHYGVL5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
C584YGVLTCGSCKV5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
C587LTCGSCKVFFK5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
C798SFYSLCLTMWQ4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
C798SFYSLCLSMWQ1Gallus gallus
C891QLHLYCLNTFI4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
C891QLHLFCLNTFL1Gallus gallus
D745RNLHIDDQITL5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
E723LNQLGERQLLS4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
E723LNHLCERQLLC1Gallus gallus
F778GQMLYFAPDLI5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
F794MKESSFYSLCL4Homo sapiens, Gallus gallus, Canis lupus familiaris, Pan troglodytes
F794MKELSFYSLCL1Rattus norvegicus
F905ALSVEFPEMMS4Homo sapiens, Gallus gallus, Canis lupus familiaris, Pan troglodytes
F905ALAVEFPEMMS1Rattus norvegicus
G576GDEASGCHYGV5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
G585GVLTCGSCKVF5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
G635AGMVLGGRKFK5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
G636GMVLGGRKFKK5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
G722SLNQLGERQLL4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
G722SLNHLCERQLL1Gallus gallus
H578EASGCHYGVLT5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
I744FRNLHIDDQIT5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
I748HIDDQITLIQY5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
I751DQITLIQYSWM5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
I913MMSEVIAAQLP5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
K588TCGSCKVFFKR5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
K592CKVFFKRAMEG5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
K617DKIRRKNCPAC5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
K638VLGGRKFKKFN4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
K638VLGGRKFKKLN1Gallus gallus
K734VVKWSKSLPGF4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
K734VVKWSKLLPGF1Gallus gallus
L715TSSSLLTSLNQ4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
L715TPSSLLTSLNH1Gallus gallus
L718SLLTSLNQLGE4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
L718SLLTSLNHLCE1Gallus gallus
L721TSLNQLGERQL4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
L721TSLNHLCERQL1Gallus gallus
L726LGERQLLSVVK4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
L726LCERQLLCVVK1Gallus gallus
L763LMVFGLGWRSY4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
L763LMVFAMGWRSY1Gallus gallus
L797SSFYSLCLTMW3Homo sapiens, Canis lupus familiaris, Pan troglodytes
L797SSFYSLCLSMW1Gallus gallus
L797LSFYSLCLTMW1Rattus norvegicus
L887DLVKQLHLYCL4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
L887DLVKQLHLFCL1Gallus gallus
M756IQYSWMSLMVF5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
M759SWMSLMVFGLG4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
M759SWMSLMVFAMG1Gallus gallus
M801SLCLTMWQIPQ4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
M801SLCLSMWQLPQ1Gallus gallus
M909EFPEMMSEVIA5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
N719LLTSLNQLGER4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
N719LLTSLNHLCER1Gallus gallus
Q725QLGERQLLSVV4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
Q725HLCERQLLCVV1Gallus gallus
Q747LHIDDQITLIQ5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
Q752QITLIQYSWMS5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
R593KVFFKRAMEGQ5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
R616VDKIRRKNCPA5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
R623NCPACRLRKCC5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
R637MVLGGRKFKKF4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
R637MVLGGRKFKKL1Gallus gallus
R740SLPGFRNLHID4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
R740LLPGFRNLHID1Gallus gallus
R766FGLGWRSYKHV4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
R766FAMGWRSYKHV1Gallus gallus
S586VLTCGSCKVFF5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
T894LYCLNTFIQSR4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
T894LFCLNTFLQSR1Gallus gallus
V589CGSCKVFFKRA5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
V730QLLSVVKWSKS4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
V730QLLCVVKWSKL1Gallus gallus
V760WMSLMVFGLGW4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
V760WMSLMVFAMGW1Gallus gallus
V912EMMSEVIAAQL5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
W755LIQYSWMSLMV5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
Y579ASGCHYGVLTC5Homo sapiens, Gallus gallus, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
Y890KQLHLYCLNTF4Homo sapiens, Canis lupus familiaris, Rattus norvegicus, Pan troglodytes
Y890KQLHLFCLNTF1Gallus gallus


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