IP Library Granted Patent US 12,692,249
Granted Patent B2
US 12,692,249 · App. 17/775,174 · Granted Jul 28, 2026

WDR5 inhibitors and modulators

Inventors: Taekyu Lee (Brentwood, TN); Kevin B. Teuscher (Nashville, TN); Jianhua Tian (Montgomery Village, MD); Kenneth M. Meyers (Nashville, TN); Somenath Chowdhury (Nashville, TN); Stephen W. Fesik (Nashville, TN)
Assignee: VANDERBILT UNIVERSITY
C07D401/14C07D405/14C07D413/14C07D471/04C07D487/04C07D491/048C07D498/04
View Patent ↗
Loading inventors, assignments & file history…
Monitor This Case
Get email alerts when status or documents change.
Order Certified Copies
Most orders are placed with the USPTO same day — all within 24 business hours.
Order via The Patent Place →
Pre-filled with this patent's details
Quick Facts
Patent No.
US 12,692,249
App. No.
17/775,174
Filed
May 6, 2022
Granted
Jul 28, 2026
Kind
B2
Art Unit
1621
USPC
514/210.21
Abstract

Isoquinolmone compounds and derivatives inhibit WDR5 and associated protein-protein interactions, and the compounds and their pharmaceutical compositions are useful for treating disorders and conditions in a subject, such as cancer cell proliferation.

Claims (58)

1 . A compound of formula (I-b)

or a pharmaceutically acceptable salt thereof, wherein:

G 1 is an optionally substituted 10-membered fused bicyclic ring system of formula

each represents a double bond;

X 12 is N;

X 13 is CR 10d ;

X 14 is CR 10e or N;

R 10a is hydrogen;

R 10b is hydrogen or C 1-4 alkyl;

R 10d is —C(O)N(R 1a ) 2 or -OR 1a ;

R 10e is hydrogen;

R 10f is C 1-4 alkyl or OC 1-4 alkyl;

R 1a , at each occurrence, is independently hydrogen, C 1-6 alkyl, C 1-6 haloalkyl, -C 2-4 alkylene-OR 1e , —C 2-4 alkylene-N(R 1e ) 2 , -C 2-4 alkylene-N(R 1e )C(O)R 1e , G 1a , or -C 1-6 alkylene-G 1a ;

G 1a is C 3-8 cycloalkyl, 6- to 10-membered aryl, 5- to 10-membered heteroaryl, or 4- to 10-membered heterocyclyl, wherein G 1a is optionally substituted with 1-4 substituents independently selected from the group consisting of halogen, C 1-4 alkyl, C 1-4 haloalkyl, oxo, -L 2 -X 2 , and -L 2 -G 1b ;

L 2 , at each occurrence, is independently a bond or C 1-3 alkylene;

X 2 , at each occurrence, is independently -OR 1c , -N(R 1c ) 2 , -SR 1c , cyano, —C(O)OR 1c , —C(O)N(R 1c ) 2 , —C(O)R 1c , -SOR 1d , —SO 2 R 1d , -SO 2 N(R 1c ) 2 , —NR 1c C(O)R 1c , —NR 1c C(O)OR 1c , —NR 1c C(O)N(R 1c ) 2 —NR 1c S(O) 2 R 1d , or —NR 1c S(O) 2 N(R 1c ) 2 ;

R 1c , at each occurrence, is independently hydrogen, C 1-6 alkyl, C 1-6 haloalkyl, G 1b , or -C 1-3 alkylene-G 1b , wherein alternatively two R 1c , together with a common nitrogen atom to which the R 1c attach form a 4- to 8-membered saturated or partially unsaturated heterocyclic ring, optionally substituted with 1-4 substituents independently selected from the group consisting of C 1-4 alkyl, C 1-4 haloalkyl, oxo, —OH, and -OC 1-4 alkyl;

R 1d , at each occurrence, is independently C 1-6 alkyl, C 1-6 haloalkyl, G 1b , or —C 1-3 alkylene-G 1b ;

R 1e , at each occurrence, is independently hydrogen, C 1-4 alkyl, C 1-4 haloalkyl, G 1b , or -C 1-3 alkylene-G 1b , wherein alternatively two R 1e , together with a common nitrogen atom to which the R 1e attach form a 4- to 8-membered saturated or partially unsaturated heterocyclic ring, optionally substituted with 1-4 substituents independently selected from the group consisting of C 1-4 alkyl, C 1-4 haloalkyl, oxo, —OH, and -OC 1-4 alkyl;

G 1b is a C 3-6 cycloalkyl, a 4- to 6-membered monocyclic heterocyclyl containing 1-2 heteroatoms independently selected from O, N, and S, a 5- to 6-membered heteroaryl containing 1-4 heteroatoms independently selected from O, N, and S, or a phenyl, wherein G 1b is optionally substituted with 1-4 substituents independently selected from the group consisting of halogen, cyano, C 1-4 alkyl, C 1-4 haloalkyl, oxo, —OH, and -OC 1-4 alkyl;

G 2 is a 5- to 12-membered heteroaryl, a C 3-10 carbocyclyl, a 6- to 12-membered aryl, or a 4- to 12-membered heterocyclyl, wherein G 2 is optionally substituted with 1-5 substituents independently selected from the group consisting of C 1-6 alkyl, C 1-6 haloalkyl, halogen, oxo, —OR 4c , —N(R 4c ) 2 , —SR 4c , cyano, —C(O)OR 4c , —C(O)N(R 4c ) 2 , —C(O)R 4c , —SOR 4d , —SO 2 R 4d , —SO 2 N(R 4c ) 2 , —NR 4c C(O)R 4c , —NR 4c C(O)OR 4c , —NR 4c C(O)N(R 4c ) 2 , —NR 4c S(O) 2 R 4d , —NR 4c S(O) 2 N(R 4c ) 2 , C 3-8 cycloalkyl, and -C 1-3 alkylene-C 3-8 cycloalkyl, wherein each C 3-8 cycloalkyl is optionally substituted with 1-4 substituents independently selected from the group consisting of C 1-4 alkyl and halogen;

R 4c , at each occurrence, is independently hydrogen, C 1-6 alkyl, C 1-6 haloalkyl, C 3-8 cycloalkyl, or -C 1-6 alkylene-C 3-8 cycloalkyl, wherein each C 3-8 cycloalkyl is optionally substituted with 1-4 substituents independently selected from the group consisting of C 1-4 alkyl and halogen, wherein alternatively two R 4c , together with a common nitrogen atom to which the R 4c attach form a 4- to 8-membered saturated or partially unsaturated heterocyclic ring, optionally substituted with 1-4 substituents independently selected from the group consisting of C 1-4 alkyl, C 1-4 haloalkyl, oxo, —OH, and -OC 1-4 alkyl;

R 4d , at each occurrence, are independently C 1-6 alkyl, C 1-6 haloalkyl, C 3-8 cycloalkyl, or -C 1-6 alkylene-C 3-8 cycloalkyl, wherein each C 3-8 cycloalkyl is optionally substituted with 1-4 substituents independently selected from the group consisting of C 1-4 alkyl and halogen;

R 5 and R 6 are each independently hydrogen, halogen, C 1-4 alkyl, C 1-4 haloalkyl, or -OC 1-4 alkyl; and

R 8 is an imidazolyl unsubstituted or substituted with 1-3 substituents independently selected from the group consisting of halogen, C 1-4 alkyl, C 1-4 haloalkyl, NO 2 , NH 2 , —NH(C 1-4 alkyl), —N(C 1-4 alkyl) 2 , C 3-8 cycloalkyl, and -C 1-3 alkylene-C 3-8 cycloalkyl, wherein each C 3-8 cycloalkyl is optionally substituted with 1-4 substituents independently selected from the group consisting of halogen, C 1-4 alkyl, C 1-4 haloalkyl, OH, and -OC 1-4 alkyl.

2 . The compound of claim 1 , or a pharmaceutically acceptable salt thereof, wherein

R 8 is

R 20a is hydrogen, C 1-4 alkyl, NH 2 , —NH(C 1-4 alkyl), —N(C 1-4 alkyl) 2 , or C 3-8 cycloalkyl; and

R 20b , R 20c , R 20d , R 20e , R 20f , R 20g , R 20h , and R 20i are each independently hydrogen, C 1-4 alkyl, or C 3-8 cycloalkyl.

3 . The compound of claim 2 , or a pharmaceutically acceptable salt thereof, wherein R 8 is

4 . The compound of claim 1 , or a pharmaceutically acceptable salt thereof, wherein G 1 is

5 . The compound of claim 1 , or a pharmaceutically acceptable salt thereof, wherein

R 10d is

OCH 3 , OCF 3 ,

6 . The compound of claim 1 , or a pharmaceutically acceptable salt thereof, wherein G 2 is a 5- to 6-membered heteroaryl, and optionally substituted as defined in claim 1 .

7 . The compound of claim 6 , or a pharmaceutically acceptable salt thereof, wherein G 2 is optionally substituted with 1-4 substituents independently selected from the group consisting of halogen, C 1-6 alkyl, and C 1-6 haloalkyl.

8 . The compound of claim 7 , or a pharmaceutically acceptable salt thereof, wherein, G 2 is

9 . The compound of claim 8 , or a pharmaceutically acceptable salt thereof, wherein, G 2 is

10 . The compound of claim 1 , or a pharmaceutically acceptable salt thereof, wherein R 5 is hydrogen.

11 . The compound of claim 10 , or a pharmaceutically acceptable salt thereof, wherein R 6 is hydrogen.

12 . A pharmaceutical composition comprising the compound of claim 1 , or a pharmaceutically acceptable salt thereof, and a pharmaceutically acceptable carrier.

13 . A method of treating cancer comprising administering to a subject in need thereof, a therapeutically effective amount of the compound of claim 1 , or a pharmaceutically acceptable salt thereof, wherein the cancer is leukemia, ovarian cancer, breast cancer, colorectal cancer, pancreatic cancer, gastric cancer, stomach cancer, lung cancer, cervical cancer, uterine cancer, or a cancer of the lymphatic system.

14 . A method of inhibiting cancer cell proliferation, comprising administering to a subject in need thereof, the compound of claim 1 , or a pharmaceutically acceptable salt thereof, wherein the cancer is leukemia, ovarian cancer, breast cancer, colorectal cancer, pancreatic cancer, gastric cancer, stomach cancer, lung cancer, cervical cancer, uterine B cancer, or a cancer of the lymphatic system.

15 . The compound of claim 1 , or a pharmaceutically acceptable salt thereof, wherein X 14 is N.

16 . The compound of claim 15 , or a pharmaceutically acceptable salt thereof, wherein R 10b is hydrogen or methyl.

17 . The compound of claim 15 , or a pharmaceutically acceptable salt thereof, wherein R 10f is ethyl or OCH 3 .

18 . The compound of claim 4 , or a pharmaceutically acceptable salt thereof, wherein G 1 is

19 . The compound of claim 18 , or a pharmaceutically acceptable salt thereof, wherein G 1 is

20 . The compound of claim 1 , or a pharmaceutically acceptable salt thereof, wherein the compound is

21 . A method of treating cancer comprising administering to a subject in need thereof, a therapeutically effective amount of the compound of claim 1 , or a pharmaceutically acceptable salt thereof, wherein the cancer is a cancer of the blood.

22 . A method of inhibiting cancer cell proliferation, comprising administering to a subject in need thereof, the compound of claim 1 , or a pharmaceutically acceptable salt thereof, wherein the cancer is a cancer of the blood.

23 . The method of claim 13 , wherein the compound is

24 . The method of claim 23 , wherein the cancer is leukemia.

25 . The method of claim 23 , wherein the cancer is a cancer of the lymphatic system.

26 . The method of claim 23 , wherein the cancer is breast cancer.

27 . The method of claim 23 , wherein the cancer is ovarian cancer.

28 . The method of claim 23 , wherein the cancer is bladder cancer.

29 . The method of claim 23 , wherein the cancer is pancreatic cancer.

Assignments (1)
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded May 6, 2022
From: LEE, TAEKYU; TEUSCHER, KEVIN B.; TIAN, JIANHUA; MEYERS, KENNETH M.; CHOWDHURY, SOMENATH; FESIK, STEPHEN W.
To: VANDERBILT UNIVERSITY
Reel/Frame 059863/0904 →
Continuity (2)
Provisional Application 62933065 · Nov 8, 2019
Related Publication 20230026466A1 · Jan 26, 2023
References Cited (66)
US 10246433B2 · Edwards et al. · 2019 [cited by applicant]
US 10807959B2 · Gogliotti et al. · 2020 [cited by applicant]
US 10844044B2 · Alvarado et al. · 2020 [cited by applicant]
US 11999716B2 · Lee · 2024 [cited by examiner]
US 20030195211A1 · Sadhu et al. · 2003 [cited by applicant]
US 20050124614A1 · Gangloff et al. · 2005 [cited by applicant]
US 20080085890A1 · Tsou et al. · 2008 [cited by applicant]
US 20110046114A1 · Molino et al. · 2011 [cited by applicant]
US 20150361067A1 · Collins et al. · 2015 [cited by applicant]
US 20160347744A1 · Corkey et al. · 2016 [cited by applicant]
US 20180086767A1 · Fesik et al. · 2018 [cited by applicant]
US 20180265517A1 · Marx et al. · 2018 [cited by applicant]
US 20180362516A1 · Sugimoto et al. · 2018 [cited by applicant]
US 20200055824A1 · Gogliotti et al. · 2020 [cited by applicant]
US 20200102288A1 · Alvarado et al. · 2020 [cited by applicant]
US 20230012362A1 · Lee et al. · 2023 [cited by applicant]
WO 2001081346A2 · 2001 [cited by applicant]
WO 2002081446A1 · 2002 [cited by applicant]
WO 2007122482A1 · 2007 [cited by applicant]
WO 2017040449A1 · 2017 [cited by applicant]
WO 2018068017A1 · 2018 [cited by applicant]
WO 2018169777A1 · 2018 [cited by applicant]
WO 2020086857A1 · 2020 [cited by applicant]
WO 2021026672A1 · 2021 [cited by applicant]
WO 2021028806A1 · 2021 [cited by applicant]
Aho et al., “Displacement of WDR5 from Chromatin by a WIN Site Inhibitor with Picomolar Affinity”, Cell Reports, vol. 26, No. 11, 2019, pp. 2916-2928. [cited by applicant]
Balgobind et al., “The heterogeneity of pediatric MLL-rearranged acute myeloid leukemia”, Leukemia, 2011, vol. 8, pp. 1239-1248. [cited by applicant]
Cao et al., “Targeting MLL1 H3K4 Methyltransferase Activity in Mixed-Lineage Leukemia”, Molecular Cell, 2014, vol. 53, pp. 247-261. [cited by applicant]
Carugo et al., “In Vivo Funcitonal Platform Targeting Patient-Derived Xenografts Identifies WDR5-Myc Association as a Critical Determinant of Pancreatic Cancer”, Cell Reports, 2016, vol. 16, pp. 133-147. [cited by applicant]
Caslini et al., “Interaction of MLL Amino Terminal Sequences with Menin Is Required for Transformation”, Cancer Res., 2007, vol. 67, pp. 7275-7283. [cited by applicant]
Chen et al., “Upregulated WDR5 promotes proliferation, self-renewal and chemoresistance in bladder cancer via mediating H3K4 trimethylation”, Scientific Reports, 2015, vol. 5, pp. 8293. [cited by applicant]
Dai et al., “WDR5 Expression Is Prognostic of Breast Cancer Outcome”, PLoSOne, 2015, vol. 10, PMC4565643. [cited by applicant]
Dess et al., “Readily available 12-I-5 oxidant for the conversion of primary and secondary alcohols to aldehydes and ketones”, J. Org. Chem., 1983, vol. 48, p. 4155. [cited by applicant]
Dias et al., “Structural analysis of the KANSL1/WDR5/KANSL2 complex reveals that WDR5 is required for efficient assembly and chromatin targeting of the NSL complex”, Genes and Development, 2014, vol. 28, pp. 929-942. [cited by applicant]
Dimartino et al., “Review: MLL Rearrangements in Haematological Malignancies: Lessons from Clinical and Biological Studies”, British Journal of Haematol., 1999, vol. 106, pp. 614-626. [cited by applicant]
Ee et al., “An Embryonic Stem Cell-Specific NuRD Complex Functions through Interaction with WDR5”, Stem Cell Reports, 2017, vol. 8, pp. 1488-1496. [cited by applicant]
International Preliminary Report on Patentability for Application No. PCT/US19/57877 dated Apr. 27, 2021 (5 pages). [cited by applicant]
International Preliminary Report on Patentability for Application No. PCT/US2020/059585 dated May 10, 2022 (7 pages). [cited by applicant]
International Search Report and Written Opinion for Application No. PCT/US19/57877 dated Jan. 6, 2020 (12 pages). [cited by applicant]
International Search Report and Written Opinion for Application No. PCT/US2020/059585 dated Mar. 1, 2021 (15 pages). [cited by applicant]
Karatas et al., “Discovery of a Highly Potent, Cell-Permeable Macrocyclic Peptidomimetic (MM-589) Targeting the WD Repeat Doman 5 Protein (WDR5)-Mixed Lineage Leukemia (MLL) Protein-Protein Interaction”, J. Med. Chem., … [cited by applicant]
Li et al., “MOF and H4 K16 Acetylation Play Important Roles in DNA Damage Repar by Modulating Recruitment of DNA Damanage Repair Protein Mdc1”, Molecular and Cellular Biology, 2010, vol. 30, pp. 5335-5347. [cited by applicant]
Littke, Fu, “Palladium-Catalyzed Coupling Reactions of Aryl Chlorides”, Angew. Chem., Int. Ed., 2002, vol. 41, pp. 4176-4211. [cited by applicant]
Marschalek, “Mechamisms of leukemogenesis by MLL fusion proteins”, British Journal of Haematol., 2011, vol. 152, pp. 141-54. [cited by applicant]
Milne et al., “Leukemogenic MLL Fusion Proteins Bind across a Broad Region of the Hox a9 Locus, Promoting Transcription and Multiple Histone Modifications”, Cancer Res., 2005, vol. 65, pp. 11367-74. [cited by applicant]
Milne et al., “MLL Targets SET Domain Methyltransferase Activity to Hox Gene Promoters”, Mol. Cell, 2002, vol. 10, pp. 1107-17. [cited by applicant]
Miyaura et al., “Palladium Catalyzed Cross-Coupling Reactions of Organoboron Compounds”, Chem. Rev., 1995, p. 2457. [cited by applicant]
Nakamura et al., “ALL-1 Is a Histone Methyltransferase that Assemblesl a Supercomplex of Proteins Involved in Transcriptional Regulation”, Mol. Cell., 2002, vol. 10, pp. 1119-1128. [cited by applicant]
Patel et al., “On the Mechanism of Multiple Lysine Methylation by the Human Mixed Lineage Luekemia Protein-1 (MLL1) Core Complex”, Biol. Chem., 2009, vol. 284, pp. 24242-56. [cited by applicant]
Pigazzi et al., “MLL Partner genes drive distinct gene expression profiles and genomic alterations in pediatric actute myeloid leukemia: an AIEOP study”, Leukemia, 2011, vol. 25, pp. 560-563. [cited by applicant]
Pui et al., “Clinical heterogeneity in childhood acute lymphoblastic leukemia with 11q23 rearrangements”, Leukemia, 2003, vol. 4, pp. 700-706. [cited by applicant]
Senisterra et al., “Small-molecule inhibition of MLL activity by disruption of its interaction with WDR5”, Biochem J., 2013, vol. 449, pp. 151-159. [cited by applicant]
Slany, “The molecular biology of mixed lineage leukemia”, Haematologica, 2009, vol. 94, pp. 984-993. [cited by applicant]
Song et al., “WDR5 Interacts with Mixed Lineage Leukemia (MLL) Protein via the Histone H3-binding Pocket”, J. Biol. Chem., 2008, vol. 283, pp. 35258-64. [cited by applicant]
Sun et al., “WDR5 Supports an N-Myc Transcriptional Complex That Drives a Protumorigenic Gene Expression Signature in Neuroblastoma”, Cancer Research, 2015, vol. 75, pp. 5143-5154. [cited by applicant]
Tamai et al., “11q23/MLL Acute Leukemia: Update of Clinical Aspects”, J. Clin. Exp. Hematop., 2010, vol. 50, pp. 91-98. [cited by applicant]
Tan et al., “PI3K/AKT-mediated upregulation of WDR5 promotes colorectal cancer metastasis by directly targeting ZNF407”, Cell Death & Disease, 2017, vol. 8, e2686, 12 pages. [cited by applicant]
Thachuk et al., “Involvement of a Homolog of [cited by applicant]
Thomas et al., “Interaction with WDR5 Promotes Target Gene Recognition and Tumorigenesis by MYC”, Molecular Cell, 2015, vol. 58, pp. 440-452. [cited by applicant]
Tian et al.,, “Discovery and Structure Based Optimization of Potent and Selective WD Repeat Domain 5 (WDR5) Inhibitors Containing a Dihydroisoquinolinone Bicyclic Core”, J. Med. Chem., 2020, vol. 63, pp. 656-675. [cited by applicant]
Tomizawa et al., “Outcome of risk-based therapy for infant acute lymphoblastic leukemia with or without an MLL gene rearrangement, with emphasis on late effects: a final report of two consecutive studies, MLL96 and MLL9… [cited by applicant]
Wang et al., “Discovery of Potent 2-Aryl-6,7-dihydro-5 H-pyrrolo[1,2-a] imidazoles as WDR5-WIN-Site Inhibitors Using Fragment-Based Methods and Structure-Based Design”, Journal of Medicinal Chemistry, vol. 61, No. 13, 2… [cited by applicant]
Wolff, “The Schmidt Reaction”, Organic Reactions, 2011, pp. 307-336. [cited by applicant]
Yokoyama et al., “Leukemia Proto-Oncoprotein MLL Forms a SET1-Like Histone Methyltransferase Complex with Menin to Regulate Hox Gene Expression”, Mol. Cell Biol., 2004, vol. 24, pp. 5639-5649. [cited by applicant]
Yokoyama et al., “The Menin Tumor Suppressor Protein Is an Essential Oncogenic Cofactor for MLL-Associated Leukemogenesis”, Cell, 2005, vol. 123, pp. 207-218. [cited by applicant]
Yu et al., “MLL, a mammalian trithorax-group gene, functions as a transcriptional maintenance factor in morphogenesis”, Proc. Natl. Acad. Sci., 1998, vol. 95, pp. 10632-10636. [cited by applicant]