9U4T | pdb_00009u4t

Cryo-EM map of MSMEG_3496 in complex with AcpM, size exclusion chromatography peak1

• PDB DOI: https://doi.org/10.2210/pdb9U4T/pdb
• EM Map EMD-63854: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN
• Organism(s): Mycolicibacterium smegmatis MC2 155
• Expression System: Mycolicibacterium smegmatis MC2 155
• Mutation(s): No 


• Deposited: 2025-03-20 Released: 2025-12-10 
• Deposition Author(s): Gao, F., Zhang, X., Li, D., Ma, X.
• Funding Organization(s): Other government, National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.11 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM structures of mycobacteria MmpL5-AcpM complex.

Li, D., Zhang, X., Yuan, K., Ma, X., Wang, Y., Han, P., Sun, J., Guo, T., Pang, X., Liu, K., Wu, Y., Liu, Y., Tan, S., Zhang, X., Xiao, H., Gao, G.F., Gao, F.

(2025) Sci China Life Sci 68: 3779-3782

• PubMed: 40762944 
• DOI: https://doi.org/10.1007/s11427-025-3021-3
• Primary Citation Related Structures: 
  9U4T, 9U4V, 9U51

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Organizational Affiliation: 
• The Second Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, 310009, China. [e-mail].
Laboratory of Protein Engineering and Vaccines, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, 300308, China. [e-mail].
Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen, 518055, China.
Laboratory of Protein Engineering and Vaccines, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, 300308, China.
Cryo-EM Center, Southern University of Science and Technology, Shenzhen, 518055, China.
CAS Key Laboratory of Pathogen Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, China.
The Second Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, 310009, China.
Department of Pathogen Microbiology, School of Basic Medical Sciences, Capital Medical University, Beijing, 100069, China.
The Third People's Hospital of Shenzhen, Shenzhen, 518112, China.
State Key Laboratory of Engineering Biology for Low-Carbon Manufacturing, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, 300308, China.
Laboratory of Protein Engineering and Vaccines, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, 300308, China. [e-mail].
The Second Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, 310009, China. [e-mail].
CAS Key Laboratory of Pathogen Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, China. [e-mail].
Laboratory of Protein Engineering and Vaccines, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, 300308, China. [e-mail].

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 121.44 kDa 
• Atom Count: 6,301 
• Modeled Residue Count: 825 
• Deposited Residue Count: 1,107 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
MmpL4 protein	A	1,008	Mycolicibacterium smegmatis MC2 155	Mutation(s): 0  Gene Names: MSMEG_3496
UniProt
Find proteins for A0QY12 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)) Explore A0QY12  Go to UniProtKB:  A0QY12

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Meromycolate extension acyl carrier protein	B	99	Mycolicibacterium smegmatis MC2 155	Mutation(s): 0  Gene Names: acpM, MSMEG_4326, MSMEI_4226
UniProt
Find proteins for A0R0B3 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)) Explore A0R0B3  Go to UniProtKB:  A0R0B3

Small Molecules

Modified Residues  1 Unique
ID	Chains	Modified Residue	Modification Type	Formula	2D Diagram
4HH	B	SER	4-Phosphopantetheine	C14 H28 N3 O9 P S

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.11 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2025-12-10 
Deposition Author(s): Gao, F., Zhang, X., Li, D., Ma, X.

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Funding Organization	Location	Grant Number
Other government	China	202403021211192
National Natural Science Foundation of China (NSFC)	China	32161133022

Revision History  

• Version 1.0: 2025-12-10
  Type: Initial release
  
• Version 1.1: 2025-12-17
  Changes: Data collection, Database references