9IY3 | pdb_00009iy3

Iterative acetyltransferase on lasso peptides from Actinomycetes in complex with CoA

• PDB DOI: https://doi.org/10.2210/pdb9IY3/pdb
• EM Map EMD-60983: EMDB EMDataResource

• Classification: TRANSFERASE
• Organism(s): Actinosynnema mirum DSM 43827
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-07-29 Released: 2025-08-13 
• Deposition Author(s): Wu, S., Xiong, J., Lei, D., Dong, S.
• Funding Organization(s): National Natural Science Foundation of China (NSFC), Other government

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.17 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Iterative acylation on mature lasso peptides by widespread GNATs for lipolasso production

Xiong, J., Wu, S., Liang, Z., Gong, X., Fang, S., Tao, F., Wu, Q., Cui, J., Gao, K., Luo, S., Lei, D., Dong, S.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D7  (Explore in 3D)
Global Stoichiometry: Homo 14-mer - A14 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 22.44 kDa 
• Atom Count: 1,529 
• Modeled Residue Count: 189 
• Deposited Residue Count: 196 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GCN5-related N-acetyltransferase	A	196	Actinosynnema mirum DSM 43827	Mutation(s): 0  Gene Names: Amir_6318
UniProt
Find proteins for C6WJ45 (Actinosynnema mirum (strain ATCC 29888 / DSM 43827 / JCM 3225 / NBRC 14064 / NCIMB 13271 / NRRL B-12336 / IMRU 3971 / 101)) Explore C6WJ45  Go to UniProtKB:  C6WJ45

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
COA (Subject of Investigation/LOI)	B [auth A]	COENZYME A C21 H36 N7 O16 P3 S RGJOEKWQDUBAIZ-IBOSZNHHSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.17 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX
RECONSTRUCTION	cryoSPARC	4.2

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-08-13 
Deposition Author(s): Wu, S., Xiong, J., Lei, D., Dong, S.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	22077056
National Natural Science Foundation of China (NSFC)	China	22377046
National Natural Science Foundation of China (NSFC)	China	32171300
National Natural Science Foundation of China (NSFC)	China	2210070084
National Natural Science Foundation of China (NSFC)	China	21907046
Other government		22ZD6FA006
Other government		23ZDFA015

Revision History  

• Version 1.0: 2025-08-13
  Type: Initial release