9UJ1 | pdb_00009uj1

Crystal Structure of AKR1C3 in Complex with an Osthole-Derived Inhibitor

• PDB DOI: https://doi.org/10.2210/pdb9UJ1/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2025-04-16 Released: 2026-04-22 
• Deposition Author(s): Liu, H., Zheng, X., Sun, M.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 
  0.243 (Depositor), 0.243 (DCC) 
• R-Value Work: 
  0.189 (Depositor), 0.189 (DCC) 
• R-Value Observed: 
  0.192 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of AKR1C3 in Complex with an Osthole-Derived Inhibitor

Liu, H., Sun, M.

To be published.

Biological Assembly 1  

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

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 76.01 kDa 
• Atom Count: 5,232 
• Modeled Residue Count: 625 
• Deposited Residue Count: 646 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Aldo-keto reductase family 1 member C3	A, B	323	Homo sapiens	Mutation(s): 0  Gene Names: AKR1C3, DDH1, HSD17B5, KIAA0119, PGFS EC: 1.1.1 (PDB Primary Data), 1.1.1.210 (PDB Primary Data), 1.1.1.53 (PDB Primary Data), 1.1.1.62 (PDB Primary Data), 1.1.1.357 (PDB Primary Data), 1.1.1.188 (PDB Primary Data), 1.1.1.239 (PDB Primary Data), 1.1.1.64 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for P42330 (Homo sapiens) Explore P42330  Go to UniProtKB:  P42330
PHAROS:  P42330 GTEx:  ENSG00000196139

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAP (Subject of Investigation/LOI)	C [auth A], E [auth B]	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C21 H28 N7 O17 P3 XJLXINKUBYWONI-NNYOXOHSSA-N
A1EPD (Subject of Investigation/LOI)	D [auth A], F [auth B]	(~{E})-4-(7-methoxy-2-oxidanylidene-chromen-8-yl)-2-methyl-~{N},~{N}-dipropyl-but-2-enamide C21 H27 N O4 LVDCERBZZDZBAB-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free:  0.243 (Depositor), 0.243 (DCC) 
• R-Value Work:  0.189 (Depositor), 0.189 (DCC) 
• R-Value Observed: 0.192 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.678	α = 90
b = 87.665	β = 102.541
c = 75.546	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
CrysalisPro	data reduction
CrysalisPro	data scaling
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-04-22 
Deposition Author(s): Liu, H., Zheng, X., Sun, M.

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Funding Organization	Location	Grant Number
Other government	China	--

Revision History  

• Version 1.0: 2026-04-22
  Type: Initial release