9SXF | pdb_00009sxf

c-KIT kinase domain in complex with (R)-Pyrrolidine derivative of AZD7762

• PDB DOI: https://doi.org/10.2210/pdb9SXF/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2025-10-09 Released: 2026-10-21 
• Deposition Author(s): Teuber, A., Mueller, M.P., Rauh, D.
• Funding Organization(s): German Research Foundation (DFG), European Regional Development Fund, German Federal Ministry for Education and Research, Other private, Other government

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.200 (Depositor), 0.199 (DCC) 
• R-Value Work: 
  0.183 (Depositor), 0.185 (DCC) 
• R-Value Observed: 
  0.186 (Depositor) 

Starting Model: experimental

Literature

Compound-screen identifies first-in-class inhibitor of multi-drug resistant KIT and PDGFRA AP/AL mutations

Muehlenberg, T., Teuber, A., Kleinboelting, S.B., Mueller, M.P., Rauh, D.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 37.54 kDa 
• Atom Count: 2,391 
• Modeled Residue Count: 295 
• Deposited Residue Count: 327 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mast/stem cell growth factor receptor Kit	A	327	Homo sapiens	Mutation(s): 14  Gene Names: KIT, SCFR EC: 2.7.10.1
UniProt & NIH Common Fund Data Resources
Find proteins for P10721 (Homo sapiens) Explore P10721  Go to UniProtKB:  P10721
GTEx:  ENSG00000157404

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1JRG (Subject of Investigation/LOI)	B [auth A]	3-(aminocarbonylamino)-5-(3-fluorophenyl)-~{N}-[(3~{R})-pyrrolidin-3-yl]thiophene-2-carboxamide C16 H17 F N4 O2 S GUGJCHCTXDUVMW-LLVKDONJSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.200 (Depositor), 0.199 (DCC) 
• R-Value Work:  0.183 (Depositor), 0.185 (DCC) 
• R-Value Observed: 0.186 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M39SXF

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 56.82	α = 90
b = 56.82	β = 90
c = 189.66	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-10-21 
Deposition Author(s): Teuber, A., Mueller, M.P., Rauh, D.

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Funding Organization	Location	Grant Number
German Research Foundation (DFG)	Germany	RA 1055/3-2
European Regional Development Fund	European Union	EFRE-800400
German Federal Ministry for Education and Research	Germany	InCa (01ZX2201B)
Other private		Ex-2021-0033
Other government		NW21-062C
Other private		MERCUR
Other private		Deutsche Krebshilfe (TACTIC)

Revision History  

• Version 1.0: 2026-10-21
  Type: Initial release