8ROR | pdb_00008ror

Single-particle cryo-EM of Mycoplasma pneumoniae adhesin P1 complexed with the anti-adhesive Fab fragment.

• PDB DOI: https://doi.org/10.2210/pdb8ROR/pdb
• EM Map EMD-19402: EMDB EMDataResource

• Classification: CELL ADHESION
• Organism(s): Mycoplasmoides pneumoniae M129, Mus musculus
• Expression System: Escherichia coli BL21(DE3), Escherichia coli
• Mutation(s): No 


• Deposited: 2024-01-12 Released: 2025-03-05 
• Deposition Author(s): Kawamoto, A., Vizarraga, D., Marcos-Silva, M., Fita, I., Miyata, M., Pinyol, J., Namba, K., Kenri, T.
• Funding Organization(s): Ministerio de Ciencia e Innovacion (MCIN), Ministry of Education, Culture, Sports, Science and Technology (Japan)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.39 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Antibodies halting motility in Mycoplasma pneumoniae reveal the dynamic nature of the adhesion complex

Kawamoto, A., Vizarraga, D., Marcos-Silva, M., Martin, J., Makino, F., Miyata, T., Roel, J., Marcos, E., Aparicio, D., Fita, I., Miyata, M., Pinyol, J., Namba, K., Kenri, T.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 3-mer - A2B1 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 206.23 kDa 
• Atom Count: 14,205 
• Modelled Residue Count: 1,789 
• Deposited Residue Count: 1,897 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Adhesin P1	A [auth 1]	1,457	Mycoplasmoides pneumoniae M129	Mutation(s): 0  Gene Names: mgpA, MPN_141, MP013
UniProt
Find proteins for P11311 (Mycoplasma pneumoniae (strain ATCC 29342 / M129 / Subtype 1)) Explore P11311  Go to UniProtKB:  P11311

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Light Chain Fab	B [auth L]	218	Mus musculus	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Heavy Chain Fab	C [auth H]	222	Mus musculus	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.39 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-03-05 
Deposition Author(s): Kawamoto, A., Vizarraga, D., Marcos-Silva, M., Fita, I., Miyata, M., Pinyol, J., Namba, K., Kenri, T.

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Funding Organization	Location	Grant Number
Ministerio de Ciencia e Innovacion (MCIN)	Spain	PID2021-125632OB-C22, PID2021-125632OB-C21
Ministry of Education, Culture, Sports, Science and Technology (Japan)	Japan	22K07063

Revision History  

• Version 1.0: 2025-03-05
  Type: Initial release