5QIN | pdb_00005qin

TGF-BETA RECEPTOR TYPE 2 KINASE DOMAIN IN COMPLEX WITH N- {4-[3-(6-METHOXYPYRIDIN-3-YL)-1H-PYRROLO[3,2-B]PYRIDIN-2- YL]PYRIDIN-2-YL}ACETAMIDE

• PDB DOI: https://doi.org/10.2210/pdb5QIN/pdb
• Deposition Group: G_1002052 | Explore  G_1002052  

• Classification: TRANSFERASE/TRANSFERASE INHIBITOR
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): Yes 


• Deposited: 2018-08-05 Released: 2018-10-31 
• Deposition Author(s): Sheriff, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.57 Å
• R-Value Free: 
  0.203 (Depositor), 0.203 (DCC) 
• R-Value Work: 
  0.187 (Depositor), 0.189 (DCC) 
• R-Value Observed: 
  0.188 (Depositor) 

Starting Model: experimental

Literature

Discovery of 4-Azaindole Inhibitors of TGF beta RI as Immuno-oncology Agents.

Zhang, Y., Zhao, Y., Tebben, A.J., Sheriff, S., Ruzanov, M., Fereshteh, M.P., Fan, Y., Lippy, J., Swanson, J., Ho, C.P., Wautlet, B.S., Rose, A., Parrish, K., Yang, Z., Donnell, A.F., Zhang, L., Fink, B.E., Vite, G.D., Augustine-Rauch, K., Fargnoli, J., Borzilleri, R.M.

(2018) ACS Med Chem Lett 9: 1117-1122

• PubMed: 30429955 
• DOI: https://doi.org/10.1021/acsmedchemlett.8b00357
• Primary Citation Related Structures: 
  5QIK, 5QIL, 5QIM, 5QIN


• PubMed Abstract: 
  

  The multifunctional cytokine TGFβ plays a central role in regulating antitumor immunity. It has been postulated that inhibition of TGFβ signaling in concert with checkpoint blockade will provide improved and durable immune response against tumors. Herein, we describe a novel series of 4-azaindole TGFβ receptor kinase inhibitors with excellent selectivity for TGFβ receptor 1 kinase. The combination of compound 3f and an antimouse-PD-1 antibody demonstrated significantly improved antitumor efficacy compared to either treatment alone in a murine tumor model.

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Organizational Affiliation: 
• Bristol-Myers Squibb Research and Development, PO Box 4000, Princeton, New Jersey 08543, United States.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 36.32 kDa 
• Atom Count: 2,540 
• Modeled Residue Count: 295 
• Deposited Residue Count: 316 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TGF-beta receptor type-2	A	316	Homo sapiens	Mutation(s): 6  Gene Names: TGFBR2 EC: 2.7.11.30
UniProt & NIH Common Fund Data Resources
Find proteins for P37173 (Homo sapiens) Explore P37173  Go to UniProtKB:  P37173
PHAROS:  P37173 GTEx:  ENSG00000163513

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
J2V	B [auth A]	N-{4-[3-(6-methoxypyridin-3-yl)-1H-pyrrolo[3,2-b]pyridin-2-yl]pyridin-2-yl}acetamide C20 H17 N5 O2 XODSKPZUYKGNMW-UHFFFAOYSA-N
GOL	D [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
MG	C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.57 Å
• R-Value Free:  0.203 (Depositor), 0.203 (DCC) 
• R-Value Work:  0.187 (Depositor), 0.189 (DCC) 
• R-Value Observed: 0.188 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.45	α = 90
b = 75.11	β = 90
c = 75.14	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
Aimless	data scaling
AMoRE	phasing
BUSTER	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2018-10-31 
Deposition Author(s): Sheriff, S.

Revision History  

• Version 1.0: 2018-10-31
  Type: Initial release
  
• Version 1.1: 2018-12-26
  Changes: Data collection, Database references
• Version 1.2: 2021-05-12
  Changes: Derived calculations, Structure summary
• Version 1.3: 2024-03-06
  Changes: Data collection, Database references
• Version 1.4: 2026-02-18
  Changes: Refinement description, Structure summary