IP Library Granted Patent US 11,104,675
Granted Patent B2
US 11,104,675 · App. 16/536,923 · Granted Aug 31, 2021

PTPN11 inhibitors

Inventors: Philip Jones (Houston, TX); Barbara Czako (Bellaire, TX); Christopher L. Carroll (Houston, TX); Pijus Mandal (Sugarland, TX); Jason Cross (Pearland, TX)
Assignee: NAVIRE PHARMA, INC.
C07D471/04A61P35/00C07D491/107
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Quick Facts
Patent No.
US 11,104,675
App. No.
16/536,923
Granted
Aug 31, 2021
Kind
B2
Abstract

The present invention relates to compounds which are useful as inhibitors of PTPN11 for the treatment or prevention of cancer and other PTP-mediated diseases. Disclosed herein are new compounds and compounds based on pyrazolopyrazines and their application as pharmaceuticals for the treatment of disease.

Claims (74)

1. A compound represented by Formula I

or a salt thereof, wherein:

subscript a is 0 or 1;

subscript b is 0 or 1;

Y 1 is a direct bond or CR 17 R 18 ;

Y 2 is selected from the group consisting of C 1-4 alkyl, amino, C 1-4 alkylC(O)O—, C 1-4 alkylamino and C 1-4 aminoalkyl;

R 1 is selected from the group consisting of C 6-10 aryl, C 3-8 cycloalkyl, C 3-8 cycloalkenyl, and a 5-10 membered heteroaryl group having 1 to 4 heteroatoms or groups as ring vertices independently selected from N, C(O), O, and S; said aryl or heteroaryl of R 1 is optionally substituted with 1 to 5 R 12 groups independently selected from the group consisting of halo, hydroxy, amino, C 1-4 alkylamino, di(C 1-4 alkyl)amino, cyano, C 1-4 alkyl, C 1-4 alkoxy, C 1-4 hydroxyalkyl, C 1-4 haloalkyl, C 1-4 aminoalkyl, C 3-8 cycloalkyl, C 3-8 cycloalkenyl, NR 15 C(O)R 14 , NR 15 C(O)OR 14 , NR 14 C(O)NR 15 R 16 , NR 15 S(O)R 14 , NR 15 S(O) 2 R 1 , C(O)NR 15 R 16 , S(O)NR 15 R 16 , S(O) 2 NR 15 R 16 , C(O)R 14 , C(O)OR 14 , OR 14 , SR 14 , S(O)R 14 , and S(O) 2 R 14 ;

R 2 , R 3 , R 10 , and R 11 are each independently selected from the group consisting of hydrogen, C 1-4 alkyl, and C 3-8 cycloalkyl;

R 4 , R 5 , R 8 , and R 9 are each independently selected from the group consisting of hydrogen, cyano, C 1-4 alkyl, C 1-4 alkoxy, amino, hydroxy, C 3-8 cycloalkyl, halo, and C 1-4 alkylamino;

R 6 is selected from the group consisting of amino, C 1-4 aminoalkyl, and C 1-4 alkylamino;

R 7 is selected from the group consisting of hydrogen, amido, cyano, halo, and hydroxy, or is selected from the group consisting of C 1-4 alkyl, C 1-4 hydroxyalkyl, C 3-6 cycloalkyl, phenyl, and 5- or 6-membered heteroaryl, any of which is optionally substituted with one to five groups independently selected from the group consisting of amino, halo, hydroxy, cyano, C 1-4 alkyl, C 1-4 alkoxy, C 1-4 haloalkyl, C 1-4 haloalkoxy, C 1-4 alkylamino, and C 1-4 aminoalkyl;

or R 6 and R 7 together with the carbon atom to which they are both attached form a 3- to 7-membered saturated or unsaturated ring, having 0 to 3 heteroatoms or groups as ring vertices independently selected from N, C(O), O, and S(O) m ;

subscript m is 0, 1, or 2;

said saturated or unsaturated ring formed by R 6 and R 7 is unsubstituted or substituted with 1 to 3 groups independently selected from the group consisting of amino, halo, hydroxy, cyano, C 1-4 alkyl, C 1-4 alkoxy, C 1-4 haloalkyl, C 1-4 haloalkoxy, C 1-4 alkylamino and C 1-4 aminoalkyl;

any two groups of R 2 , R 3 , R 4 , R 5 , R 7 , R 8 , R 9 , R 10 and R 11 can form a 5 to 6 membered ring, having 0 to 2 heteroatoms as ring vertices elected from N, O and S;

any two groups of R 2 , R 4 , R 6 , R 8 and R 10 can form a direct bond, or a 1 or 2 atom carbon bridge;

R 13 is selected from the group consisting of hydrogen, halo, cyano, C 1-6 alkyl, C 1-6 haloalkyl, C 1-6 hydroxyalkyl, C 1-6 dihydroxyalkyl, —NH—NHR 19 , —OR 19 , —NHC(O)R 19 , —NHC(O)NHR 19 , —NHS(O) 2 NHR 19 , —NHS(O) 2 R 19 , —C(O)OR 19 , —C(O)NR 19 R 20 , —C(O)NH(CH 2 ) q OH, —C(O)NH(CH 2 )R 21 , —C(O)R 21 , —NH 2 , —OH, —S(O) 2 NR 19 R 20 , C 3-8 cycloalkyl, aryl, heterocyclyl having 1-5 heteroatoms as ring vertices selected from N, O, S and P, heteroaryl having 1-5 heteroatoms as ring vertices selected from N, O, S and P; wherein the subscript q is an integer of from 0 to 6; and wherein aryl, heteroaryl, heterocyclyl and cycloalkyl are substituted with 0 to 3 groups independently selected from the group consisting of C 1-4 alkyl, —OH, —NH 2 , —OR 21 , halo, cyano, and oxo;

R 14 , R 15 and R 16 are each independently selected from the group consisting of hydrogen, C 1-4 alkyl, C 3-8 cycloalkyl, C 6-10 aryl and 5-10 membered heteroaryl, each of which is optionally substituted by one or more groups independently selected from the group consisting of amido, amino, halo, hydroxy, cyano, C 1-4 alkyl, C 1-4 alkoxy, C 1-4 haloalkyl, C 1-4 haloalkoxy, C 1-4 alkylamino and C 1-4 aminoalkyl;

R 17 and R 18 are each independently selected from the group consisting of hydrogen, C 1-4 alkyl, and CF 3 ;

R 19 and R 20 are each independently selected from the group consisting of hydrogen, C 1-6 alkyl, C 1-6 haloalkyl, C 1-6 hydroxyalkyl, C 2-6 alkenyl, C 2-6 alkynyl and C 3-6 cycloalkyl; and

each R 21 is independently selected from the group consisting of hydrogen, —OH, C 1-6 alkyl, C 1-6 haloalkyl, C 1-6 hydroxyalkyl, C 2-6 alkenyl, C 2-6 alkynyl and C 3-6 cycloalkyl.

2. The compound of claim 1 , wherein:

subscript a is 0 or 1;

subscript b is 0 or 1;

Y 1 is a direct bond or CR 17 R 18 ;

Y 2 is selected from the group consisting of C 1-4 alkyl, amino, C 1-4 alkylC(O)O—, C 1-4 alkylamino and C 1-4 aminoalkyl;

R 1 is selected from the group consisting of C 6-10 aryl, C 3-8 cycloalkyl, C 3-8 cycloalkenyl, and a 5-10 membered heteroaryl group having 1 to 4 heteroatoms or groups as ring vertices independently selected from N, C(O), O, and S; said aryl or heteroaryl of R 1 is optionally substituted with 1 to 5 R 12 groups independently selected from the group consisting of halo, hydroxy, amino, C 1-4 alkylamino, di(C 1-4 alkyl)amino, cyano, C 1-4 alkoxy, C 1-4 hydroxyalkyl, C 3-8 cycloalkyl, C 3-8 cycloalkenyl, NR 15 C(O)R 14 , NR 15 C(O)OR 14 , NR 14 C(O)NR 15 R 16 , NR 15 S(O)R 14 , NR 15 S(O) 2 R 14 , C(O)NR 15 C R 16 , S(O)NR 15 R 16 , S(O) 2 NR 15 R 16 , C(O)R 14 , C(O)OR 14 , OR 14 , SR 14 , S(O)R 14 , and S(O) 2 R 14 ,

R 2 , R 3 , R 10 , and R 11 are each independently selected from the group consisting of hydrogen, C 1-4 alkyl, and C 3-8 cycloalkyl;

R 4 , R 5 , R 8 , and R 9 are each independently selected from the group consisting of hydrogen, cyano, C 1-4 alkoxy, amino, hydroxy, C 3-8 cycloalkyl, halo, and C 1-4 alkylamino;

R 6 is selected from the group consisting of amino, C 1-4 aminoalkyl, and C 1-4 alkylamino;

R 7 is selected from the group consisting of hydrogen, halo, and hydroxy, or is selected from the group consisting of amido, C 1-4 alkyl, C 1-4 hydroxyalkyl, C 3-6 cycloalkyl, phenyl, and 5- or 6-membered heteroaryl, any of which is optionally substituted with one to five groups independently selected from the group consisting of amino, halo, hydroxy, cyano, C 1-4 alkoxy, C 1-4 haloalkyl, C 1-4 haloalkoxy, and C 1-4 aminoalkyl;

or R 6 and R 7 together with the carbon atom to which they are both attached form a 3- to 7-membered saturated or unsaturated ring, having 0 to 3 heteroatoms or groups as ring vertices independently selected from N, C(O), O, and S(O) m ;

subscript m is 0, 1, or 2;

said saturated ring formed by R 6 and R 7 is unsubstituted or substituted with 1 to 3 groups independently selected from the group consisting of amino, halo, hydroxy, cyano, C 1-4 alkyl, C 1-4 alkoxy, C 1-4 haloalkyl, C 1-4 haloalkoxy, C 1-4 alkylamino and C 1-4 aminoalkyl;

any two groups of R 2 , R 3 , R 4 , R 5 , R 7 , R 8 , R 9 , R 10 and R 11 can form a 5 to 6 membered ring, having 0 to 2 heteroatoms as ring vertices selected from N, O and S;

any two groups of R 2 , R 4 , R 6 , R 8 and R 10 can form a direct bond, or a 1 or 2 atom carbon bridge;

R 13 is selected from the group consisting of hydrogen, halo, cyano, C 1-6 alkyl, C 1-6 haloalkyl, C 1-6 hydroxyalkyl, C 1-6 dihydroxyalkyl, —NH—NHR 19 , —NHR 19 , —OR 19 , —NHC(O)R 19 , —NHC(O)NHR 19 , —NHS(O) 2 NHR 19 , —NHS(O) 2 R 19 , —C(O)OR 19 , —C(O)NR 19 R 20 , —C(O)NH(CH 2 ) q OH, —C(O)NH(CH 2 ) q R 21 , —C(O)R 21 , —NH 2 , —OH, —S(O) 2 NR 19 R 20 , C 3-8 cycloalkyl, aryl, heterocyclyl having 1-5 heteroatoms as ring vertices selected from N, O, S and P, heteroaryl having 1-5 heteroatoms as ring vertices selected from N, O, S and P; wherein the subscript q is an integer of from 0 to 6; and wherein aryl, heteroaryl, heterocyclyl and cycloalkyl are substituted with 0 to 3 groups independently selected from the group consisting of C 1-4 alkyl, —OH, —NH 2 , —OR 21 , halo, cyano, and oxo;

R 14 , R 15 and R 16 are each independently selected from the group consisting of hydrogen, C 1-4 alkyl, C 3-8 cycloalkyl, C 6-10 aryl and 5-10 membered heteroaryl, each of which is optionally substituted by one or more groups independently selected from the group consisting of halo, hydroxy, cyano, and C 1-4 alkyl;

R 17 and R 18 are each independently selected from the group consisting of hydrogen, C 1-4 alkyl, and CF 3 ;

R 19 and R 20 are each independently selected from the group consisting of hydrogen, C 1-6 alkyl, C 1-6 haloalkyl, C 1-6 hydroxyalkyl, C 2-6 alkenyl, C 2-6 alkynyl and C 3-6 cycloalkyl; and

each R 21 is independently selected from the group consisting of hydrogen, —OH, C 1-6 alkyl, C 1-6 haloalkyl, C 1-6 hydroxyalkyl, C 2-6 alkenyl, C 2-6 alkynyl and C 3-6 cycloalkyl.

3. The compound of claim 1 , wherein subscripts a and b are each 1.

4. The compound of claim 1 , wherein Y 1 is a direct bond.

5. The compound of claim 1 , wherein Y 2 is C 1-4 alkyl.

6. The compound of claim 5 , wherein Y 2 is methyl.

7. The compound of claim 1 , wherein R 13 is selected from the group consisting of hydrogen, halo, C 1-6 alkyl, and C 1-6 haloalkyl.

8. The compound of claim 7 , wherein R 13 is hydrogen, Cl, Br, methyl, or CF 3 .

9. The compound of claim 1 , wherein

R 1 is phenyl or a 5- to 6-member heteroaryl group having 1 to 4 heteroatoms as ring vertices independently selected from N, O, and S; and is optionally substituted with 1, 2 or 3 R 12 groups independently selected from the group consisting of halo, hydroxy, amino, C 1-4 amino, C 1-4 alkyl, C 1-4 alkoxy, C 1-4 haloalkyl, C 1-4 aminoalkyl, and OR 14 .

10. The compound of claim 1 , wherein R 2 , R 3 , R 4 , R 5 , R 8 , R 9 , R 10 and R 11 are hydrogen.

11. The compound of claim 1 , wherein:

R 6 is selected from the group consisting of amino, C 1-4 aminoalkyl, and C 1-4 alkylamino; and

R 7 is selected from the group consisting of hydrogen, amido, cyano, halo, and hydroxy, or is selected from the group consisting of C 1-4 alkyl, C 1-4 hydroxyalkyl, C 3-6 cycloalkyl, phenyl, and 5- or 6-membered heteroaryl, any of which is optionally substituted with one or two groups selected from the group consisting of amino, halo, hydroxy, cyano, trifluoromethyl, trifluoromethoxy, C 1-4 alkyl, and C 1-4 alkoxy.

12. The compound of claim 11 , wherein

R 6 is amino or aminomethyl; and

R 7 is selected from the group consisting of hydroxy, C 1-4 alkyl, and C 1-4 hydroxyalkyl.

13. The compound of claim 1 , wherein

R 6 and R 7 together with the carbon atom to which they are both attached form a 3- to 7-membered saturated or unsaturated ring having 1 to 3 heteroatoms or groups as ring vertices independently selected from N, C(O), O, and S(O) m , and that is optionally substituted with one or two groups independently selected from the group consisting of amino, halo, hydroxy, C 1-4 alkoxy, C 1-4 alkylamino and C 1-4 aminoalkyl.

14. The compound of claim 13 , wherein

R 6 and R 7 together with the carbon atom to which they are both attached form a 4- to 6-membered saturated ring having 1 to 3 heteroatoms as ring vertices independently selected from N and O, and that is optionally substituted with one or two groups independently selected from the group consisting of amino, halo, hydroxy, C 1-4 alkoxy, C 1-4 alkylamino and C 1-4 aminoalkyl.

15. The compound of claim 1 , wherein

R 6 and R 7 together with the carbon atom to which they are both attached form a 3- to 7-membered cycloalkyl ring that is optionally substituted with one or two groups independently selected from the group consisting of amino, halo, hydroxy, C 1-4 alkyl, C 1-4 alkoxy, C 1-4 alkylamino and C 1-4 aminoalkyl.

16. The compound of claim 1 , wherein R 1 is phenyl or pyridyl, each of which is substituted with 1 to 3 R 12 independently selected from the group consisting of halo, hydroxy, amino, C 1-4 alkylamino, di(C 1-4 alkyl)amino, C 1-4 alkyl, C 1-4 alkoxy, C 1-4 haloalkyl, C 1-4 aminoalkyl, and OR 14 .

17. The compound of claim 1 , wherein R 1 is selected from the group consisting of:

each R 12 is independently selected from the group consisting of halo, hydroxy, amino, C 1-4 alkylamino, di(C 1-4 alkyl)amino, C 1-4 alkyl, C 1-4 alkoxy, C 1-4 haloalkyl, C 1-4 aminoalkyl, and OR 14 .

18. The compound of claim 17 , wherein R 1 is selected from the group consisting of:

19. The compound of claim 1 , wherein R 14 is selected from the group consisting of C 6-10 aryl and a 5-10 membered heteroaryl, each of which is optionally substituted by one or more groups independently selected from the group consisting of C 1-4 alkylamido, amino, halo, hydroxy, cyano, C 1-4 alkyl, C 1-4 alkoxy, C 1-4 haloalkyl, C 1-4 haloalkoxy, C 1-4 alkylamino and C 1-4 aminoalkyl.

20. The compound of claim 1 , wherein R 1 is

each R 12 is independently selected from the group consisting of halo, hydroxy, amino, C 1-4 alkylamino, di(C 1-4 alkyl)amino, C 1-4 alkyl, C 1-4 alkoxy, C 1-4 haloalkyl, and C 1-4 aminoalkyl; and

R 14 is phenyl or a 5-6 membered heteroaryl having 1 to 4 heteroatoms as ring vertices independently selected from N, O, and S, each of which is optionally substituted by one or two groups independently selected from the group consisting of C 1-4 alkylamido, halo, hydroxy, cyano, and C 1-4 alkyl.

21. The compound of claim 1 , wherein each R 12 is independently selected from the group consisting of F, Cl, Br, CH 3 , OCH 3 , CF 3 ,

22. The compound of claim 1 , having a structure selected from the group consisting of:

23. A pharmaceutical composition comprising a compound of claim 1 , together with a pharmaceutically acceptable carrier.

24. A method of treatment of a PTPN11-mediated disease comprising the administration of a therapeutically effective amount of a compound of claim 1 , to a patient in need thereof, wherein the PTPN11-mediated disease is a Noonan Syndrome, LEOPARD Syndrome, or cancer selected from the group consisting of breast cancer, colon cancer, lung cancer, esophageal cancer, gastric cancer, leukemia, and melanoma.

Assignments (6)
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Sep 4, 2025
From: NAVIRE PHARMA, INC.
To: BOARD OF REGENTS, THE UNIVERSITY OF TEXAS SYSTEM
Reel/Frame 072160/0110 →
RELEASE OF SECURITY INTEREST IN PATENT COLLATERAL Recorded Mar 5, 2025
From: BLUE OWL CAPITAL CORPORATION, AS ADMINISTRATIVE AGENT
To: BRIDGEBIO PHARMA, INC.; QED THERAPEUTICS, INC.; EIDOS THERAPEUTICS, INC.; ML BIO SOLUTIONS INC.; CALCILYTIX THERAPEUTICS INC.; ADRENAS THERAPEUTICS INC.; PHOENIX TISSUE REPAIR, INC.; NAVIRE PHARMA, INC.; VENTHERA, INC.; MOLECULAR SKIN THERAPEUTICS, INC.; CANTERO THERAPEUTICS, INC.; COA THERAPEUTICS, INC.; PORTAL THERAPEUTICS, INC.; BRIDGEBIO GENE THERAPY RESEARCH, INC.; FERRO THERAPEUTICS, INC.
Reel/Frame 070551/0095 →
SECURITY INTEREST Recorded Jan 19, 2024
From: BRIDGEBIO PHARMA, INC.; QED THERAPEUTICS, INC.; EIDOS THERAPEUTICS, INC.; THERAS, INC.; ML BIO SOLUTIONS INC.; CALCILYTIX THERAPEUTICS INC.; ADRENAS THERAPEUTICS INC.; PHOENIX TISSUE REPAIR, INC.; NAVIRE PHARMA, INC.; VENTHERA, INC.; MOLECULAR SKIN THERAPEUTICS, INC.; CANTERO THERAPEUTICS, INC.; COA THERAPEUTICS, INC.; PORTAL THERAPEUTICS, INC.; BRIDGEBIO GENE THERAPY RESEARCH, INC.; FERRO THERAPEUTICS, INC.; SUB21, INC.
To: BLUE OWL CAPITAL CORPORATION, AS ADMINISTRATIVE AGENT
Reel/Frame 066355/0126 →
SECURITY INTEREST Recorded Jan 17, 2024
From: CALCILYTIX THERAPEUTICS INC.; ADRENAS THERAPEUTICS INC.; PHOENIX TISSUE REPAIR, INC.; NAVIRE PHARMA, INC.; VENTHERA, INC.; MOLECULAR SKIN THERAPEUTICS, INC.; CANTERO THERAPEUTICS, INC.; COA THERAPEUTICS, INC.; PORTAL THERAPEUTICS, INC.; BRIDGEBIO GENE THERAPY RESEARCH, INC.; FERRO THERAPEUTICS, INC.; SUB21, INC.
To: BLUE OWL CAPITAL CORPORATION, AS ADMINISTRATIVE AGENT
Reel/Frame 066342/0154 →
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Oct 21, 2020
From: BOARD OF REGENTS, THE UNIVERSITY OF TEXAS SYSTEM
To: NAVIRE PHARMA, INC.
Reel/Frame 054130/0519 →
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Aug 19, 2019
From: JONES, PHILIP; CZAKO, BARBARA; CARROLL, CHRISTOPHER L.; MANDAL, PIJUS; CROSS, JASON
To: BOARD OF REGENTS, THE UNIVERSITY OF TEXAS SYSTEM
Reel/Frame 050093/0189 →