9J4R | pdb_00009j4r

Cryo-EM structure of ferric ion importer, FbpBC, from Thermus thermophilus

• PDB DOI: https://doi.org/10.2210/pdb9J4R/pdb
• EM Map EMD-61136: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN
• Organism(s): Thermus thermophilus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 
• Membrane Protein: Yes  MemProtMD


• Deposited: 2024-08-09 Released: 2025-08-13 
• Deposition Author(s): Lu, P., Nagata, K., Kise, Y., Nureki, O.
• Funding Organization(s): Japan Society for the Promotion of Science (JSPS), Other private, Japan Science and Technology, Japan Agency for Medical Research and Development (AMED)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.09 Å
• Aggregation State: 2D ARRAY 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM structure of ferric ion importer, FbpBC, from Thermus thermophilus HB8

Lu, P., Nagata, K., Kise, Y., Nureki, O.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A2B1 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 126.84 kDa 
• Atom Count: 8,934 
• Modeled Residue Count: 1,170 
• Deposited Residue Count: 1,173 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Iron ABC transporter permease	A	493	Thermus thermophilus	Mutation(s): 0  Gene Names: TthHB5018_17360 Membrane Entity: Yes
UniProt
Find proteins for Q72I67 (Thermus thermophilus (strain ATCC BAA-163 / DSM 7039 / HB27)) Explore Q72I67  Go to UniProtKB:  Q72I67

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Iron ABC transporter, ATP-binding protein	B, C	340	Thermus thermophilus	Mutation(s): 0  Gene Names: TTHA1630 Membrane Entity: Yes
UniProt
Find proteins for Q5SHV0 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)) Explore Q5SHV0  Go to UniProtKB:  Q5SHV0

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.09 Å
• Aggregation State: 2D ARRAY 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2025-08-13 
Deposition Author(s): Lu, P., Nagata, K., Kise, Y., Nureki, O.

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Funding Organization	Location	Grant Number
Japan Society for the Promotion of Science (JSPS)	Japan	20K22561
Other private	Japan	Japan Science Society 2023-4016
Other private	China	Innovation Center of Yangtze River Delta, Zhejiang University, Research Start-up Project
Japan Society for the Promotion of Science (JSPS)	Japan	19H05771
Japan Society for the Promotion of Science (JSPS)	Japan	17681026
Japan Society for the Promotion of Science (JSPS)	Japan	18H02151
Japan Society for the Promotion of Science (JSPS)	Japan	22K19263
Japan Society for the Promotion of Science (JSPS)	Japan	22H02555
Japan Society for the Promotion of Science (JSPS)	Japan	21H05037
Japan Science and Technology	Japan	20344981
Japan Agency for Medical Research and Development (AMED)	Japan	JP21am0101001
Japan Agency for Medical Research and Development (AMED)	Japan	JP23ama121002
Japan Science and Technology	Japan	JPMJSP2108
Other private	Japan	The Toyo Suisan Foundation, Scientific Research Grant 2024

Revision History  

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