7LHG | pdb_00007lhg

Cryo-EM structure of E. coli P pilus tip assembly intermediate PapC-PapD-PapK-PapG in the first conformation


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.80 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 7LHG

This is version 1.2 of the entry. See complete history

Literature

Processive dynamics of the usher assembly platform during uropathogenic Escherichia coli P pilus biogenesis.

Du, M.Yuan, Z.Werneburg, G.T.Henderson, N.S.Chauhan, H.Kovach, A.Zhao, G.Johl, J.Li, H.Thanassi, D.G.

(2021) Nat Commun 12: 5207-5207

  • DOI: https://doi.org/10.1038/s41467-021-25522-6
  • Primary Citation Related Structures: 
    7LHG, 7LHH, 7LHI

  • PubMed Abstract: 

    Uropathogenic Escherichia coli assemble surface structures termed pili or fimbriae to initiate infection of the urinary tract. P pili facilitate bacterial colonization of the kidney and pyelonephritis. P pili are assembled through the conserved chaperone-usher pathway. Much of the structural and functional understanding of the chaperone-usher pathway has been gained through investigations of type 1 pili, which promote binding to the bladder and cystitis. In contrast, the structural basis for P pilus biogenesis at the usher has remained elusive. This is in part due to the flexible and variable-length P pilus tip fiber, creating structural heterogeneity, and difficulties isolating stable P pilus assembly intermediates. Here, we circumvent these hindrances and determine cryo-electron microscopy structures of the activated PapC usher in the process of secreting two- and three-subunit P pilus assembly intermediates, revealing processive steps in P pilus biogenesis and capturing new conformational dynamics of the usher assembly machine.


  • Organizational Affiliation
    • Department of Structural Biology, Van Andel Institute, Grand Rapids, MI, USA.

Macromolecule Content 

  • Total Structure Weight: 172.1 kDa 
  • Atom Count: 11,592 
  • Modeled Residue Count: 1,492 
  • Deposited Residue Count: 1,562 
  • Unique protein chains: 4

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
P fimbrial usher protein PapCA [auth C]809Escherichia coliMutation(s): 0 
Gene Names: papCGE554_23855HJR83_004260
Membrane Entity: Yes 
UniProt
Find proteins for P07110 (Escherichia coli)
Explore P07110 
Go to UniProtKB:  P07110
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP07110
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Chaperone protein PapDB [auth D]239Escherichia coliMutation(s): 0 
Gene Names: papD
Membrane Entity: Yes 
UniProt
Find proteins for P15319 (Escherichia coli)
Explore P15319 
Go to UniProtKB:  P15319
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP15319
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
Fimbrial adapter PapKC [auth K]178Escherichia coliMutation(s): 0 
Gene Names: papK
Membrane Entity: Yes 
UniProt
Find proteins for P62532 (Escherichia coli)
Explore P62532 
Go to UniProtKB:  P62532
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62532
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 4
MoleculeChains  Sequence LengthOrganismDetailsImage
P fimbria tip G-adhesin PapG-IID [auth G]336Escherichia coliMutation(s): 0 
Gene Names: papG-IIHJS42_005082
Membrane Entity: Yes 
UniProt
Find proteins for Q47450 (Escherichia coli)
Explore Q47450 
Go to UniProtKB:  Q47450
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ47450
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.80 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM110387
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM131754

Revision History  (Full details and data files)

  • Version 1.0: 2021-08-11
    Type: Initial release
  • Version 1.1: 2021-09-15
    Changes: Database references
  • Version 1.2: 2024-05-29
    Changes: Data collection