IP Library Granted Patent US 11,414,385
Granted Patent B2
US 11,414,385 · App. 16/063,877 · Granted Aug 16, 2022

Compounds and methods for treating, detecting, and identifying compounds to treat apicomplexan parasitic diseases

Inventors: Rima McLeod (Chicago, IL); Martin McPhillie (Leeds, GB); Colin W. G. Fishwick (Leeds, GB); Hernan Alejandro Lorenzi (Rockville, MD); Kai Wang (Seattle, WA); Taek-Kyun Kim (Seattle, WA); Yong Zhou (Seattle, WA); Leroy E. Hood (Seattle, WA); Ying Zhou (Chicago, IL); Kamal El Bissati (Chicago, IL); Mark Hickman (Silver Spring, MD); QiGui Li (Silver Spring, MD); Craig Roberts (Glasgow, GB)
C07D215/233A61P33/06C07D401/12C07D405/12C07D471/04C07D487/04
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Quick Facts
Patent No.
US 11,414,385
App. No.
16/063,877
Granted
Aug 16, 2022
Kind
B2
Abstract

Disclosed herein; are novel compounds for treating apicomplexan parasite related disorders, methods for their use; cell line and non-human animal models of the dormant parasite phenotype and methods for their use in identifying new drugs to treat apicomplexan parasite related disorders, and biomarkers to identify disease due to the parasite and its response to treatment.

Claims (153)

1. A compound of the structure of

(a) Formula (I):

or a stereoisomer thereof, or a pharmaceutically acceptable salt thereof,

wherein

ring A combines with Y 1 and Y 2 to form a C 3-7 cycloalkenyl or heteroaryl ring, wherein the C 3-7 cycloalkenyl or heteroaryl is optionally substituted by halogen, C 1-3 alkyl, C 1-3 alkoxy, C 1-3 haloalkyl, —O—C 1-3 haloalkyl, —S—C 1-3 haloalkyl, —C(O)OR, cyano or phenyl;

Y 1 is C;

Y 2 is C or N;

X 1 is C(R x1 ) or N,

wherein R x1 is hydrogen, halogen, C 1-3 alkyl, C 1-3 alkoxy or C 1-3 haloalkyl;

X 2 is C(R x2 ) or N,

wherein R x2 is hydrogen, halogen, C 1-3 alkyl, C 1-3 alkoxy or C 1-3 haloalkyl;

X 3 is O, N(R), S or C 1-3 alkyl;

X 4 is C or N;

X 5 is C or N;

R 1 is hydrogen or C 1-3 alkyl;

R 2 is hydrogen, C 1-3 alkyl, C 1-3 haloalkyl, —CH 2 OH, —CH 2 OR or —C(O)OR;

n is 0, 1, 2, 3 or 4;

each R 3 is independently halogen, C 1-3 alkyl, C 1-3 alkoxy, C 1-3 haloalkyl, —O—C 1-3 haloalkyl, —S—C 1-3 haloalkyl, —C(O)OR or SF 5 ;

or two R 3 groups, together with the carbons to which they are attached, form a 1,3-dioxolane; and

each R is independently hydrogen or C 1-3 alkyl; or

(b) compound of the structure of Formula (I-p):

or a stereoisomer thereof, or a pharmaceutically acceptable salt thereof,

wherein

ring A combines with Y 1 and Y 2 to form a C 3-7 cycloalkenyl or heteroaryl ring,

wherein the C 3-7 cycloalkenyl or heteroaryl is optionally substituted by halogen, C 1-3 alkyl, C 1-3 alkoxy, C 1-3 haloalkyl, —O—C 1-3 haloalkyl, —S—C 1-3 haloalkyl, —C(O)OR, cyano or phenyl;

Y 1 is C;

Y 2 is C or N;

X 1 is C(R x1 ) or N,

wherein R x1 is hydrogen, halogen, C 1-3 alkyl, C 1-3 alkoxy or C 1-3 haloalkyl;

X 2 is C(R x2 ) or N,

wherein R x2 is hydrogen, halogen, C 1-3 alkyl, C 1-3 alkoxy or C 1-3 haloalkyl;

X 3 is O, N(R), S or C 1-3 alkyl;

X 5 is C or N;

P is —C(O)OR′, —C(O)R′, —C(O)NR′ 2 , wherein R′ is hydrogen, C 1-3 alkyl or —CH 2 OR;

R 2 is hydrogen, C 1-3 alkyl, C 1-3 haloalkyl, —CH 2 OH, —CH 2 OR, —C(O)OR or —CH 2 OP;

P is —C(O)OR′, —C(O)R′, —C(O)NR′ 2 or —OP(O)(OR′)OR′, wherein each R′ is independently hydrogen or C 1-3 alkyl;

n is 0, 1, 2, 3 or 4;

each R 3 is independently halogen, C 1-3 alkyl, C 1-3 alkoxy, C 1-3 haloalkyl, —O—C 1-3 haloalkyl, —S—C 1-3 haloalkyl, —C(O)OR or SF 5 ;

or two R 3 groups, together with the carbons to which they are attached, form a 1,3-dioxolane; and

each R is independently hydrogen or C 1-3 alkyl.

2. The compound of claim 1 , having the structure of (I):

or a stereoisomer thereof, or a pharmaceutically acceptable salt thereof,

wherein

ring A combines with Y 1 and Y 2 to form a C 3-7 cycloalkenyl or heteroaryl ring,

wherein the C 3-7 cycloalkenyl or heteroaryl is optionally substituted by halogen, C 1-3 alkyl, C 1-3 alkoxy, C 1-3 haloalkyl, —O—C 1-3 haloalkyl, —S—C 1-3 haloalkyl, —C(O)OR, cyano or phenyl;

Y 1 is C;

Y 2 is C or N;

X 1 is C(R x1 ) or N,

wherein R x1 is hydrogen, halogen, C 1-3 alkyl, C 1-3 alkoxy or C 1-3 haloalkyl;

X 2 is C(R x2 ) or N,

wherein R x2 is hydrogen, halogen, C 1-3 alkyl, C 1-3 alkoxy or C 1-3 haloalkyl;

X 3 is O, N(R), S or C 1-3 alkyl;

X 4 is C or N;

X 5 is C or N;

R 1 is hydrogen or C 1-3 alkyl;

R 2 is hydrogen, C 1-3 alkyl, C 1-3 haloalkyl, —CH 2 OH, —CH 2 OR or —C(O)OR;

n is 0, 1, 2, 3 or 4;

each R 3 is independently halogen, C 1-3 alkyl, C 1-3 alkoxy, C 1-3 haloalkyl, —O—C 1-3 haloalkyl, —S—C 1-3 haloalkyl, —C(O)OR or SF 5 ;

or two R 3 groups, together with the carbons to which they are attached, form a 1,3-dioxolane; and

each R is independently hydrogen or C 1-3 alkyl.

3. The compound of claim 1 , having the structure of (Ia):

or a stereoisomer thereof, or a pharmaceutically acceptable salt thereof,

wherein

ring A combines with Y 1 and Y 2 to form a C 3-7 cycloalkenyl or heteroaryl ring,

wherein the C 3-7 cycloalkenyl or heteroaryl is optionally substituted by halogen, C 1-3 alkyl, C 1-3 alkoxy, C 1-3 haloalkyl, —O—C 1-3 haloalkyl, —S—C 1-3 haloalkyl, —C(O)OR, cyano or phenyl;

Y 1 is C;

Y 2 is C or N;

X 1 is C(R x1 ) or N,

wherein R x1 is hydrogen, halogen, C 1-3 alkyl, C 1-3 alkoxy or C 1-3 haloalkyl;

X 2 is C(R x2 ) or N,

wherein R x2 is hydrogen, halogen, C 1-3 alkyl, C 1-3 alkoxy or C 1-3 haloalkyl;

X 3 is O, N(R), S or C 1-3 alkyl;

R 1 is hydrogen or C 1-3 alkyl;

R 2 is hydrogen, C 1-3 alkyl or —C(O)OR;

n is 0, 1, 2, 3 or 4;

each R 3 is independently halogen, C 1-3 alkyl, C 1-3 alkoxy, C 1-3 haloalkyl, —O—C 1-3 haloalkyl, —S—C 1-3 haloalkyl, —C(O)OR or SF 5 ; and

each R is independently hydrogen or C 1-3 alkyl.

4. The compound of claim 3 , having

(a) the structure of Formula (Ib):

(b) the structure of Formula (Ic):

(c) the structure of Formula (II):

wherein ring A combines with the carbon atoms with which it is attached to form a C 3-7 cycloalkenyl;

(d) the structure of Formula (IIa):

or

(e) the structure of Formula (IIa-1):

wherein R 3 is hydrogen, halogen, C 1-3 alkyl or C 1-3 haloalkyl.

5. The compound of claim 1 , having the structure of Formula (IV):

or a stereoisomer thereof, or a pharmaceutically acceptable salt thereof,

wherein

ring A combines with Y 1 and Y 2 to form a C 3-7 cycloalkenyl or heteroaryl ring,

wherein the C 3-7 cycloalkenyl or heteroaryl is optionally substituted by halogen, C 1-3 alkyl, C 1-3 alkoxy, C 1-3 haloalkyl, —O—C 1-3 haloalkyl, —S—C 1-3 haloalkyl, —C(O)OR, cyano or phenyl;

Y 1 is C;

Y 2 is C or N;

X 1 is C(R x1 ) or N,

wherein R x1 is hydrogen, halogen, C 1-3 alkyl, C 1-3 alkoxy or C 1-3 haloalkyl;

X 2 is C(R x2 ) or N,

wherein R x2 is hydrogen, halogen, C 1-3 alkyl, C 1-3 alkoxy or C 1-3 haloalkyl;

X 3 is O, N(R), S or C 1-3 alkyl;

X 3 is C or N;

X 5 is C or N;

R 1 is hydrogen or C 1-3 alkyl;

R 2 is hydrogen, C 1-3 alkyl, C 1-3 haloalkyl, —CH 2 OH, —CH 2 OR or —C(O)OR;

n is 0, 1, 2, 3 or 4;

each R 3 is independently halogen, C 1-3 alkyl, C 1-3 alkoxy, C 1-3 haloalkyl, —O—C 1-3 haloalkyl, —S—C 1-3 haloalkyl, —C(O)OR or SF 5 ; and

each R is independently hydrogen or C 1-3 alkyl.

6. The compound of claim 5 , having the structure of Formula (IVa):

wherein

ring A combines with the carbon atoms with which it is attached to form a C 3-7 cycloalkenyl.

7. The compound of claim 5 , having the structure of Formula (IVb):

8. A compound that is:

Structure

Name

2-methyl-3-(4-(4- (trifluoromethoxy)phenoxy)phenyl)quinolin-4(1H)- one

2-methyl-3-(4-phenoxyphenyl)quinolin-4(1H)-one

1-ethyl-2-methyl-3-(4-phenoxyphenyl)quinolin- 4(1H)-one

3-(4-(4-chlorophenoxy)-3-hydroxyphenyl)-2- methylquinolin-4(1H)-one

2-methyl-3-(4-phenoxyphenyl)-5,6,7,8- tetrahydroquinolin-4(1H)-one

2-methyl-3-(4-(4- (trifluoromethoxy)phenoxy)phenyl)-5,6,7,8- tetrahydroquinolin-4(1H)-one

4-((5-(2-methyl-4-oxo-1,4,5,6,7,8- hexahydroquinolin-3-yl)pyridin-2-yl)oxy)benzoic acid

4-(4-(2-methyl-4-oxo-1,4,5,6,7,8- hexahydroquinolin-3-yl)phenoxy)benzoic acid

3-(4-(2-methyl-4-oxo-1,4,5,6,7,8- hexahydroquinolin-3-yl)phenoxy)benzoic acid

3-(4-(4-chlorophenoxy)phenyl)-2-methyl-5,6,7,8- tetrahydroquinolin-4(1H)-one

3-(4-(4-fluorophenoxy)phenyl)-2-methyl-5,6,7,8- tetrahydroquinolin-4(1H)-one

2-methyl-3-(4-(4- (trifluoromethyl)phenoxy)phenyl)-5,6,7,8- tetrahydroquinolin-4(1H)-one

3-(4-(3-chlorophenoxy)phenyl)-2-methyl-5,6,7,8- tetrahydroquinolin-4(1H)-one

3-(4-(3-fluorophenoxy)phenyl)-2-methyl-5,6,7,8- tetrahydroquinolin-4(1H)-one

1,2-dimethyl-3-(4-(4- (trifluoromethoxy)phenoxy)phenyl)-5,6,7,8- tetrahydroquinolin-4(1H)-one

3-(4-(4-chlorophenoxy)phenyl)-1,2-dimethyl- 5,6,7,8-tetrahydroquinolin-4(1H)-one

2-methyl-3-(4-(3- (trifluoromethoxy)phenoxy)phenyl)-5,6,7,8- tetrahydroquinolin-4(1H)-one

2-methyl-3-(4-(3- (trifluoromethyl)phenoxy)phenyl)-5,6,7,8- tetrahydroquinolin-4(1H)-one

3-(4-(3,5-dichlorophenoxy)phenyl)-2-methyl- 5,6,7,8-tetrahydroquinolin-4(1H)-one

3-(4-(3-chloro-4-fluorophenoxy)phenyl)-2-methyl- 5,6,7,8-tetrahydroquinolin-4(1H)-one

methyl 3-((5-(4-ethoxy-2-methyl-5,6,7,8-tetrahydroquinolin-3-yl)pyridin-2-yl)oxy) benzoate

1,2-dimethyl-3-(4-(4-(trifluoromethoxy)phenoxy)phenyl)-5,6,7,8-tetrahydroquinolin-4-one

3-(4-(3,4-Dichlorophenoxy)phenyl)-2-methyl-5,6,7,8-tetrahydroquinolin-4(1H)-one

3-[4-(3-chloro-4-fluorophenoxy)phenyl]-2-methyl-5,6,7,8-tetrahydro-1H-quinolin-4-one

3-{4-[(2,6-dichloropyridin-4-yl)oxy]phenyl}-2-methyl-5,6,7,8-tetrahydro-1H-quinolin-4-one

3-[4-(3,5-dichlorophenoxy)phenyl]-2-methyl-5,6,7,8-tetrahydro-1H-quinolin-4(1H)-one

3 (4-(4-Trifluoromethoxyphenoxy)phenyl)-2-(carboxylate)-5,6,7,8-tetrahydroquinolin-4(1H)-one

3-(6-(4-Trifluoromethoxyphenoxy)pyrdin-3-yl)-2-methyl-5,6,7,8-tetrahydroquinolin-(4)-one

3-(4-Phenonxyphenyl)-1,2,3,4,5,6,7,8-octahydroquinazoline-2,4,dione

3-(4-(4-Trifluoromethoxyphenoxy)phenyl)-2-(methylhydroxy)-5,6,7,8-tetrahydroquinolin-4(1H)-one

3-[4-(2H-1,3-benzodioxol-5-yloxy)phenyl]-2-methyl-5,6,7,8-tetrahydro-1H-quinolin-4-one

6-Ethyl-3-(4-(4-trifluoromethoxyphenoxy)phenyl)-2-methyl-5,6,7,8-tetrahydroquinolin-4(1H)-one

3-(4-(4-Trifluoromethoxyphenoxy)phenyl)-2,6-dimethyl-5,6,7,8-tetrahydroquinolin-4(1H)-one

3-(4-(4-Trifluoromethoxyphenoxy)phenyl)-2,7-dimethyl-5,6,7,8-tetrahydroquinolin-4(1H)-one

7-Ethyl-2-methyl-3(4-(4-trifluoromethoxyphenoxy)phenyl)-5,6,7,8-tetrahydroquinolin-4(1H)-one

3-(4-(4-trifluoromethoxyphenoxy)phenyl)-2-methyl-1,7-naphthyrid-4(1H)-one

7-Trifluromethyl-2-methyl-3(4-(4-trifluoromethoxyphenoxy)phenyl)-5,6,7,8-tetrahydroquinolin-4(1H)-one

or a stereoisomer thereof, or a pharmaceutically acceptable salt thereof.

9. The compound of claim 1 that is 2-methyl-3-(4-(4-(trifluoromethoxy)phenoxy)phenyl)-5,6,7,8-tetrahydroquinolin-4(1H)-one, or a pharmaceutically acceptable salt thereof.

10. A pharmaceutical composition comprising a compound of claim 1 and a pharmaceutically acceptable diluent, excipient, or carrier.

11. A method for treating an apicomplexan parasitic infection, comprising administering to a subject in need thereof an amount effective to treat the infection of the compound or pharmaceutical composition of claim 1 .

Assignments (9)
CORRECTIVE ASSIGNMENT TO CORRECT THE SECOND APPLICATION NUMBER PREVIOUSLY RECORDED AT REEL: 66716 FRAME: 0211. ASSIGNOR(S) HEREBY CONFIRMS THE ASSIGNMENT. Recorded Mar 13, 2024
From: EL BISSATI, KAMAL; ZHOU, YING; MCLEOD, RIMA
To: THE UNIVERSITY OF CHICAGO
Reel/Frame 066795/0313 →
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Mar 12, 2024
From: LORENZI, HERNAN
To: J. CRAIG VENTER INSTITUTE, INC.
Reel/Frame 066734/0736 →
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Mar 12, 2024
From: FISHWICK, COLIN
To: THE UNIVERSITY OF LEEDS
Reel/Frame 066734/0846 →
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Mar 11, 2024
From: ROBERTS, CRAIG
To: THE UNIVERSITY OF STRATHCLYDE
Reel/Frame 066716/0396 →
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Mar 11, 2024
From: WANG, KAI; KIM, TAKE-KYUN; ZHOU, YONG; HOOD, LEROY
To: INSTITUTE FOR SYSTEMS BIOLOGY
Reel/Frame 066716/0096 →
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Mar 11, 2024
From: EL BISSATI, KAMAL; ZHOU, YING; MCLEOD, RIMA
To: THE UNIVERSITY OF CHICAGO
Reel/Frame 066716/0211 →
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Mar 11, 2024
From: MCPHILLIE, MARTIN
To: THE UNIVERSITY OF SHEFFIELD
Reel/Frame 066716/0330 →
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Mar 25, 2022
From: LI, QUIGI
To: THE GOVERNMENT OF THE UNITED STATES, AS REPRESENTED BY THE SECRETARY OF THE ARMY
Reel/Frame 059398/0199 →
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Mar 23, 2022
From: HICKMAN, MARK R.
To: THE GOVERNMENT OF THE UNITED STATES, AS REPRESENTED BY THE SECRETARY OF THE ARMY
Reel/Frame 059371/0324 →
Continuity (3)
Provisional Application 62270264 · Dec 21, 2015
Provisional Application 62306385 · Mar 10, 2016
Related Publication 20200283391A1 · Sep 10, 2020