9X8T | pdb_00009x8t

Crystal structure of the human GAS41 YEATS domain in complex with an crotonylated YFV capsid peptide (K4cr)

• PDB DOI: https://doi.org/10.2210/pdb9X8T/pdb

• Classification: NUCLEAR PROTEIN
• Organism(s): Homo sapiens, Yellow fever virus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2025-10-20 Released: 2026-10-28 
• Deposition Author(s): Chen, S.D., Kang, S.
• Funding Organization(s): National Natural Science Foundation of China (NSFC), National Science Foundation (NSF, China)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Free: 
  0.239 (Depositor), 0.239 (DCC) 
• R-Value Work: 
  0.197 (Depositor), 0.197 (DCC) 
• R-Value Observed: 
  0.201 (Depositor) 

Starting Model: experimental

Literature

The structure of the human GAS41 YEATS domain in complex with an acetylated YFV capsid peptide (K4cr)

Kang, S., Li, X., Chen, S.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 6-mer - A4B1C1 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 4-mer - A4 

Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 64.08 kDa 
• Atom Count: 4,362 
• Modeled Residue Count: 521 
• Deposited Residue Count: 542 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
YEATS domain-containing protein 4	A, B, C, D	132	Homo sapiens	Mutation(s): 0  Gene Names: YEATS4, GAS41
UniProt & NIH Common Fund Data Resources
Find proteins for O95619 (Homo sapiens) Explore O95619  Go to UniProtKB:  O95619
PHAROS:  O95619 GTEx:  ENSG00000127337

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Yellow Fever Virus Capsid Peptide	E, F	7	Yellow fever virus	Mutation(s): 0

Small Molecules

Modified Residues  1 Unique
ID	Chains	Modified Residue	Modification Type	Formula	2D Diagram
KCR	E, F	LYS	Crotonylation	C10 H18 N2 O3

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Free:  0.239 (Depositor), 0.239 (DCC) 
• R-Value Work:  0.197 (Depositor), 0.197 (DCC) 
• R-Value Observed: 0.201 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 72.085	α = 90
b = 79.925	β = 116.864
c = 72.929	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHENIX	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-10-28 
Deposition Author(s): Chen, S.D., Kang, S.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	82504657
National Natural Science Foundation of China (NSFC)	China	92569303
National Science Foundation (NSF, China)	China	32561143026

Revision History  

• Version 1.0: 2026-10-28
  Type: Initial release