6SJX

Precursor structure of the self-processing module of iron-regulated FrpC of N. Meningitidis with calcium ions


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 20 
  • Conformers Submitted: 14 
  • Selection Criteria: structures with the least restraint violations 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Structural Basis of Ca 2+ -Dependent Self-Processing Activity of Repeat-in-Toxin Proteins.

Kuban, V.Macek, P.Hritz, J.Nechvatalova, K.Nedbalcova, K.Faldyna, M.Sebo, P.Zidek, L.Bumba, L.

(2020) mBio 11

  • DOI: https://doi.org/10.1128/mBio.00226-20
  • Primary Citation of Related Structures:  
    6SJW, 6SJX

  • PubMed Abstract: 

    The posttranslational Ca 2+ -dependent "clip-and-link" activity of large r epeat-in- t o x in (RTX) proteins starts by Ca 2+ -dependent structural rearrangement of a highly conserved self-processing module (SPM). Subsequently, an internal aspartate-proline (Asp-Pro) peptide bond at the N-terminal end of SPM breaks, and the liberated C-terminal aspartyl residue can react with a free ε-amino group of an adjacent lysine residue to form a new isopeptide bond. Here, we report a solution structure of the calcium-loaded SPM (Ca-SPM) derived from the FrpC protein of Neisseria meningitidis The Ca-SPM structure defines a unique protein architecture and provides structural insight into the autocatalytic cleavage of the Asp-Pro peptide bond through a "twisted-amide" activation. Furthermore, in-frame deletion of the SPM domain from the ApxIVA protein of Actinobacillus pleuropneumoniae attenuated the virulence of this porcine pathogen in a pig respiratory challenge model. We hypothesize that the Ca 2+ -dependent clip-and-link activity represents an unconventional strategy for Gram-negative pathogens to adhere to the host target cell surface. IMPORTANCE The Ca 2+ -dependent clip-and-link activity of large repeat-in-toxin (RTX) proteins is an exceptional posttranslational process in which an internal domain called a self-processing module (SPM) mediates Ca 2+ -dependent processing of a highly specific aspartate-proline (Asp-Pro) peptide bond and covalent linkage of the released aspartyl to an adjacent lysine residue through an isopeptide bond. Here, we report the solution structures of the Ca 2+ -loaded SPM (Ca-SPM) defining the mechanism of the autocatalytic cleavage of the Asp414-Pro415 peptide bond of the Neisseria meningitidis FrpC exoprotein. Moreover, deletion of the SPM domain in the ApxIVA protein, the FrpC homolog of Actinobacillus pleuropneumoniae , resulted in attenuation of virulence of the bacterium in a pig infection model, indicating that the Ca 2+ -dependent clip-and-link activity plays a role in the virulence of Gram-negative pathogens.


  • Organizational Affiliation

    Central European Institute of Technology, Masaryk University, Brno, Czech Republic.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Iron-regulated protein FrpC182Neisseria meningitidis serogroup CMutation(s): 0 
Gene Names: frpC
UniProt
Find proteins for P55127 (Neisseria meningitidis serogroup C)
Explore P55127 
Go to UniProtKB:  P55127
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP55127
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 20 
  • Conformers Submitted: 14 
  • Selection Criteria: structures with the least restraint violations 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Grant Agency of the Czech RepublicCzech Republic19-15175S
European Regional Development FundCzech RepublicCZ.1.05/1.1.00/02.0068
Other governmentCzech RepublicLM2015042
Other privateCzech RepublicLM2015064
Other privateCzech RepublicLM2015043
Ministry of Education, Youth and Sports of the Czech RepublicCzech RepublicLQ1601

Revision History  (Full details and data files)

  • Version 1.0: 2020-02-26
    Type: Initial release
  • Version 1.1: 2020-03-25
    Changes: Database references
  • Version 1.2: 2020-09-30
    Changes: Database references
  • Version 1.3: 2021-06-23
    Changes: Data collection
  • Version 1.4: 2023-06-14
    Changes: Database references, Other