9EK5 | pdb_00009ek5

TRIM21 PrySpry domain bound to an enhanced PRLX-93936 analog

• PDB DOI: https://doi.org/10.2210/pdb9EK5/pdb

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


• Deposited: 2024-11-30 Released: 2025-08-27 
• Deposition Author(s): Hinshaw, S.M., Corsello, S.M., Yuan, L., Lu, J., Martinez, M., Gray, N.S.
• Funding Organization(s): Other private

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.265 (Depositor), 0.268 (DCC) 
• R-Value Work: 
  0.195 (Depositor), 0.206 (DCC) 

Starting Model: in silico

Literature

TRIM21 PrySpry domain bound to an enhanced PRLX-93936 analog

Hinshaw, S.M., Corsello, S.M., Yuan, L., Lu, J., Martinez, M., Gray, N.S.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: surface plasmon resonance

Macromolecule Content 

• Total Structure Weight: 20.92 kDa 
• Atom Count: 1,549 
• Modeled Residue Count: 181 
• Deposited Residue Count: 181 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
E3 ubiquitin-protein ligase TRIM21	A	181	Homo sapiens	Mutation(s): 0  Gene Names: TRIM21, RNF81, RO52, SSA1 EC: 2.3.2.27
UniProt & NIH Common Fund Data Resources
Find proteins for P19474 (Homo sapiens) Explore P19474  Go to UniProtKB:  P19474
PHAROS:  P19474 GTEx:  ENSG00000132109

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1BLD (Subject of Investigation/LOI)	B [auth A]	(3P)-3-(4-chloro-2-ethoxyphenyl)-6-fluoro-2-[(piperazin-1-yl)methyl]quinazolin-4(3H)-one C21 H22 Cl F N4 O2 IKQWOCVGRWGJLP-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.265 (Depositor), 0.268 (DCC) 
• R-Value Work:  0.195 (Depositor), 0.206 (DCC) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 99.317	α = 90
b = 99.317	β = 90
c = 50.403	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
xia2	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-08-27 
Deposition Author(s): Hinshaw, S.M., Corsello, S.M., Yuan, L., Lu, J., Martinez, M., Gray, N.S.

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Funding Organization	Location	Grant Number
Other private	United States	--

Revision History  

• Version 1.0: 2025-08-27
  Type: Initial release