8TV8

Crystal structure of nontypeable Haemophilus influenzae SapA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.225 
  • R-Value Work: 0.197 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Antimicrobial Peptide Recognition Motif of the Substrate Binding Protein SapA from Nontypeable Haemophilus influenzae .

Rivera, K.G.Tanaka, K.J.Buechel, E.R.Origel Jr., O.Harrison, A.Mason, K.M.Pinkett, H.W.

(2024) Biochemistry 63: 294-311

  • DOI: https://doi.org/10.1021/acs.biochem.3c00562
  • Primary Citation of Related Structures:  
    8TV8

  • PubMed Abstract: 

    Nontypeable Haemophilus influenzae (NTHi) is an opportunistic pathogen associated with respiratory diseases, including otitis media and exacerbations of chronic obstructive pulmonary disease. NTHi exhibits resistance to killing by host antimicrobial peptides (AMPs) mediated by SapA, the substrate binding protein of the s ensitivity to a ntimicrobial p eptides (Sap) transporter. However, the specific mechanisms by which SapA selectively binds various AMPs such as defensins and cathelicidin are unknown. In this study, we report mutational analyses of both defensin AMPs and the SapA binding pocket to define the specificity of AMP recognition. Bactericidal assays revealed that NTHi lacking SapA are more susceptible to human beta defensins and LL-37, while remaining highly resistant to a human alpha defensin. In contrast to homologues, our research underscores the distinct specificity of NTHi SapA, which selectively recognizes and binds to peptides containing the charged-hydrophobic motif PKE and RRY. These findings provide valuable insight into the divergence of SapA among bacterial species and NTHi SapA's ability to selectively interact with specific AMPs to mediate resistance.


  • Organizational Affiliation

    Department of Molecular Biosciences, Northwestern University, Evanston, Illinois 60208, United States.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ABC-type transport system, periplasmic component, involved in antimicrobial peptide resistance564Haemophilus influenzae 86-028NPMutation(s): 0 
Gene Names: sapANTHI1401
UniProt
Find proteins for Q4QL73 (Haemophilus influenzae (strain 86-028NP))
Explore Q4QL73 
Go to UniProtKB:  Q4QL73
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ4QL73
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.225 
  • R-Value Work: 0.197 
  • Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 119.755α = 90
b = 119.755β = 90
c = 129.585γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
BALBESphasing
ARP/wARPmodel building
PDB_EXTRACTdata extraction

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 StatesR01GM140584
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01GM140584-04S1
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesR01AI139519
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesT32GM008382
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesT32GM008449

Revision History  (Full details and data files)

  • Version 1.0: 2024-01-17
    Type: Initial release
  • Version 1.1: 2024-02-21
    Changes: Database references