9KFU | pdb_00009kfu

Human FGFR3 in complex with inhibitor F1

• PDB DOI: https://doi.org/10.2210/pdb9KFU/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-11-07 Released: 2025-09-03 
• Deposition Author(s): Zhang, J., Song, K., Li, M.Y.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free: 
  0.251 (Depositor), 0.256 (DCC) 
• R-Value Work: 
  0.228 (Depositor), 0.232 (DCC) 
• R-Value Observed: 
  0.229 (Depositor) 

Starting Model: experimental

Literature

Electron-density-informed effective and reliable de novo molecular design and optimization with ED2Mol

Li, M., Song, K., He, J., Zhao, M., You, G., Zhong, J., Zhao, M., Li, A., Chen, Y., Li, G., Kong, Y., Wei, J., Wang, Z., Zhou, J., Yang, H., Ma, S., Zhang, H., Melita, I.L., Lin, W., Lu, Y., Yu, Z., Lu, X., Zhao, Y., Zhang, J.

(2025) Nat Mach Intell 7: 1355-1368

• DOI: https://doi.org/10.1038/s42256-025-01095-7

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: 35.44 kDa 
• Atom Count: 2,471 
• Modeled Residue Count: 288 
• Deposited Residue Count: 309 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fibroblast growth factor receptor 3	A	309	Homo sapiens	Mutation(s): 0  Gene Names: FGFR3, JTK4 EC: 2.7.10.1
UniProt & NIH Common Fund Data Resources
Find proteins for P22607 (Homo sapiens) Explore P22607  Go to UniProtKB:  P22607
PHAROS:  P22607 GTEx:  ENSG00000068078

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1L5T (Subject of Investigation/LOI)	B [auth A]	(7~{S})-2-azanyl-7-(4-fluorophenyl)-6,7-dihydro-4~{H}-[1,3]thiazolo[4,5-b]pyridin-5-one C12 H10 F N3 O S OFXLNTLGSXLVSA-QMMMGPOBSA-N
SO4	C [auth A], D [auth A], E [auth A], F [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
CO	G [auth A]	COBALT (II) ION Co XLJKHNWPARRRJB-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free:  0.251 (Depositor), 0.256 (DCC) 
• R-Value Work:  0.228 (Depositor), 0.232 (DCC) 
• R-Value Observed: 0.229 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.61	α = 90
b = 71.61	β = 90
c = 153.76	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
Coot	model building
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-09-03 
Deposition Author(s): Zhang, J., Song, K., Li, M.Y.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History  

• Version 1.0: 2025-09-03
  Type: Initial release