9LP4 | pdb_00009lp4

Structural insights into the Tumor suppressor ZMYND11 reveal diverse recognition mechanisms

• PDB DOI: https://doi.org/10.2210/pdb9LP4/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Homo sapiens, Human adenovirus 2
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2025-01-24 Released: 2026-01-14 
• Deposition Author(s): Bai, X., Chen, Z.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.96 Å
• R-Value Free: 
  0.238 (Depositor), 0.240 (DCC) 
• R-Value Work: 
  0.208 (Depositor), 0.209 (DCC) 
• R-Value Observed: 
  0.210 (Depositor) 

Literature

Study on zine figer structure and fuction of tumor suppressor ZMYND11

Bai, X., Chen, Z.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 4-mer - A2B1C1 

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

Biological Assembly Evidence: native gel electrophoresis

Macromolecule Content 

• Total Structure Weight: 31.89 kDa 
• Atom Count: 2,053 
• Modeled Residue Count: 257 
• Deposited Residue Count: 260 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Zinc finger MYND domain-containing protein 11	A, C	121	Homo sapiens	Mutation(s): 0  Gene Names: ZMYND11, BRAM1, BS69
UniProt & NIH Common Fund Data Resources
Find proteins for Q15326 (Homo sapiens) Explore Q15326  Go to UniProtKB:  Q15326
PHAROS:  Q15326 GTEx:  ENSG00000015171

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Early E1A protein	B, D	9	Human adenovirus 2	Mutation(s): 0
UniProt
Find proteins for P03254 (Human adenovirus C serotype 2) Explore P03254  Go to UniProtKB:  P03254

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN (Subject of Investigation/LOI)	E [auth A], F [auth A], G [auth C], H [auth C]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.96 Å
• R-Value Free:  0.238 (Depositor), 0.240 (DCC) 
• R-Value Work:  0.208 (Depositor), 0.209 (DCC) 
• R-Value Observed: 0.210 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 40.136	α = 90
b = 73.848	β = 90
c = 116.695	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
HKL2Map	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2026-01-14 
Deposition Author(s): Bai, X., Chen, Z.

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

Revision History  

• Version 1.0: 2026-01-14
  Type: Initial release