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 9IUG | pdb_00009iug

Cryo-EM structure of the type I pilus from enterotoxigenic Escherichia coli


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.20 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 

wwPDB Validation 3D Report Full Report

Validation slider image for 9IUG

This is version 1.1 of the entry. See complete history. 

Literature

High-resolution cryo-EM analysis visualizes hydrated type I and IV pilus structures from enterotoxigenic Escherichia coli.

Kawahara, K., Oki, H., Iimori, M., Muramoto, R., Imai, T., Gerle, C., Shigematsu, H., Matsuda, S., Iida, T., Nakamura, S.

(2025) Structure 33: 1040

  • DOI: https://doi.org/10.1016/j.str.2025.03.010
  • Primary Citation Related Structures: 
    9IUF, 9IUG

  • PubMed Abstract: 

    Pathogenic bacteria utilize a variety of pilus filaments to colonize intestinal epithelia, including those synthesized by the chaperone-usher or type IV pilus assembly pathway. Despite the importance of these filaments as potential drug and vaccine targets, their large size and dynamic nature make high-resolution structure determination challenging. Here, we used cryo-electron microscopy (cryo-EM) and whole-genome sequencing to determine the structures of type I and IV pili expressed in enterotoxigenic Escherichia coli. Well-defined cryo-EM maps at resolutions of 2.2 and 1.8 Å for type I and IV pilus, respectively, facilitated the de novo structural modeling for these filaments, revealing side-chain structures in detail. We resolved thousands of hydrated water molecules around and within the inner core of the filaments, which stabilize the otherwise metastable quaternary subunit assembly. The high-resolution structures offer novel insights into subunit-subunit interactions, and provide important clues to understand pilus assembly, stability, and flexibility.


  • Organizational Affiliation: 
    • Graduate School of Pharmaceutical Sciences, Osaka University, Suita, Osaka 565-0871, Japan; Center for Infectious Disease Education and Research, Osaka University, Suita, Osaka 565-0871, Japan. Electronic address: kkkazuki@phs.osaka-u.ac.jp.

Macromolecule Content 

  • Total Structure Weight: 343.64 kDa 
  • Atom Count: 26,660 
  • Modeled Residue Count: 3,339 
  • Deposited Residue Count: 3,381 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
FimA
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U
161Escherichia coliMutation(s): 0 
UniProt
Find proteins for P04128 (Escherichia coli (strain K12))
Explore P04128 
Go to UniProtKB:  P04128
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP04128
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.20 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Japan Society for the Promotion of Science (JSPS)Japan23K14519
Japan Society for the Promotion of Science (JSPS)Japan24K10218

Revision History  (Full details and data files)

  • Version 1.0: 2025-05-28
    Type: Initial release
  • Version 1.1: 2025-06-25
    Changes: Data collection, Database references