ISDA

Entry Detail

PDB ID:

8E23

Keywords:

DNA BINDING PROTEIN/DNA

Title:

Human DNA polymerase theta in complex with allosteric inhibitor

Biological Source:

Source Organism:

Homo sapiens, synthetic construct

Host Organism:

Escherichia coli

PDB Version:

Deposition Date:

2022-08-13

Release Date:

2022-09-28

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.59 Å

R-Value Free:

0.29

R-Value Work:

0.24

R-Value Observed:

0.24

Space Group:

C 1 2 1

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Description:DNA polymerase theta
Chain IDs:A, D
Chain Length:668
Number of Molecules:2
Biological Source:Homo sapiens

UniProt ID:O75417 Pfam ID:PF00476

Polymer Type:polydeoxyribonucleotide
Description:DNA (5'-D(*CP*GP*TP*CP*CP*AP*AP*TP*GP*AP*CP*AP*GP*CP*CP*GP*C)-3')
Chain IDs:B, E
Chain Length:17
Number of Molecules:2
Biological Source:synthetic construct

Polymer Type:polydeoxyribonucleotide
Description:DNA (5'-D(*GP*C*GP*GP*CP*TP*GP*TP*CP*AP*TP*TP*G)-3')
Chain IDs:C, F
Chain Length:13
Number of Molecules:2
Biological Source:synthetic construct

Ligand Molecules

DG3

UAF

Primary Citation

Identification of RP-6685 , an Orally Bioavailable Compound that Inhibits the DNA Polymerase Activity of Pol theta.

Bubenik, M, Mader, P, Mochirian, P, Vallee, F, Clark, J, Truchon, J.F, Perryman, A.L, Pau, V, Kurinov, I, Zahn, K.E, Leclaire, M.E, Papp, R, Mathieu, M.C, Hamel, M, Duffy, N.M, Godbout, C, Casas-Selves, M, Falgueyret, J.P, Baruah, P.S, Nicolas, O, Stocco, R, Poirier, H, Martino, G, Fortin, A.B, Roulston, A, Chefson, A, Dorich, S, St-Onge, M, Patel, P, Pellerin, C, Ciblat, S, Pinter, T, Barabe, F, El Bakkouri, M, Parikh, P, Gervais, C, Sfeir, A, Mamane, Y, Morris, S.J, Black, W.C, Sicheri, F, Gallant, M, Bubenik, M, Mader, P, Mochirian, P, Vallee, F, Clark, J, Truchon, J.F, Perryman, A.L, Pau, V, Kurinov, I, Zahn, K.E, Leclaire, M.E, Papp, R, Mathieu, M.C, Hamel, M, Duffy, N.M, Godbout, C, Casas-Selves, M, Falgueyret, J.P, Baruah, P.S, Nicolas, O, Stocco, R, Poirier, H, Martino, J, Fortin, A.B, Chefson, A, Dorich, S, St-Onge, M, Patel, P, Pellerin, C, Ciblat, S, Pinter, T, Barabe, F, El Bakkouri, M, Parikh, P, Gervais, C, Mamane, Y, Morris, S.J, Black, C.W, Sicheri, F, Gallant, M.Show

J.Med.Chem. 65 13198 13215 (2022)

PMID: 36126059 DOI: 10.1021/acs.jmedchem.2c00998

Abstact

DNA polymerase theta (Polθ) is an attractive synthetic lethal target for drug discovery, predicted to be efficacious against breast and ovarian cancers harboring BRCA-mutant alleles. Here, we describe our hit-to-lead efforts in search of a selective inhibitor of human Polθ (encoded by POLQ). A high-throughput screening campaign of 350,000 compounds identified an 11 micromolar hit, giving rise to the N2-substituted fused pyrazolo series, which was validated by biophysical methods. Structure-based drug design efforts along with optimization of cellular potency and ADME ultimately led to the identification of RP-6685: a potent, selective, and orally bioavailable Polθ inhibitor that showed in vivo efficacy in an HCT116 BRCA2-/- mouse tumor xenograft model.

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Primary Citation of related structures