9O6K | pdb_00009o6k

Cryo-EM structure of AMT1-AMT7-AMTP1-AMTP2 complex

• PDB DOI: https://doi.org/10.2210/pdb9O6K/pdb
• EM Map EMD-70174: EMDB EMDataResource

• Classification: TRANSFERASE
• Organism(s): Tetrahymena thermophila SB210
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2025-04-13 Released: 2025-08-13 
• Deposition Author(s): Song, J., Shao, Z.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.59 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM structure of AMT1-AMT7-AMTP1-AMTP2 complex

Song, J., Shao, Z.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 4-mer - A1B1C1D1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 4-mer - A2B1C1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 153.38 kDa 
• Atom Count: 5,847 
• Modeled Residue Count: 755 
• Deposited Residue Count: 1,324 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
AMT7	A	450	Tetrahymena thermophila SB210	Mutation(s): 0  Gene Names: TTHERM_00301770
UniProt
Find proteins for I7MIF9 (Tetrahymena thermophila (strain SB210)) Explore I7MIF9  Go to UniProtKB:  I7MIF9

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
mRNA m(6)A methyltransferase	B	372	Tetrahymena thermophila SB210	Mutation(s): 0  Gene Names: TTHERM_00704040 EC: 2.1.1.348
UniProt
Find proteins for Q22GC0 (Tetrahymena thermophila (strain SB210)) Explore Q22GC0  Go to UniProtKB:  Q22GC0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Myb-like domain-containing protein	C	360	Tetrahymena thermophila SB210	Mutation(s): 0  Gene Names: TTHERM_00161750
UniProt
Find proteins for Q22VV9 (Tetrahymena thermophila (strain SB210)) Explore Q22VV9  Go to UniProtKB:  Q22VV9

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
AMTP2	D [auth H]	142	Tetrahymena thermophila SB210	Mutation(s): 0  Gene Names: TTHERM_00439330
UniProt
Find proteins for I7M8B9 (Tetrahymena thermophila (strain SB210)) Explore I7M8B9  Go to UniProtKB:  I7M8B9

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SAH (Subject of Investigation/LOI)	E [auth B]	S-ADENOSYL-L-HOMOCYSTEINE C14 H20 N6 O5 S ZJUKTBDSGOFHSH-WFMPWKQPSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.59 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.2_5419:

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-08-13 
Deposition Author(s): Song, J., Shao, Z.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	--

Revision History  

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