8FYG

Crystal structure of Hyaluronate lyase A from Cutibacterium acnes


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.225 
  • R-Value Observed: 0.226 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Functional divergence of a bacterial enzyme promotes healthy or acneic skin.

Hajam, I.A.Katiki, M.McNally, R.Lazaro-Diez, M.Kolar, S.Chatterjee, A.Gonzalez, C.Paulchakrabarti, M.Choudhury, B.Caldera, J.R.Desmond, T.Tsai, C.M.Du, X.Li, H.Murali, R.Liu, G.Y.

(2023) Nat Commun 14: 8061-8061

  • DOI: https://doi.org/10.1038/s41467-023-43833-8
  • Primary Citation of Related Structures:  
    8FNX, 8FYG, 8G0O

  • PubMed Abstract: 

    Acne is a dermatologic disease with a strong pathologic association with human commensal Cutibacterium acnes. Conspicuously, certain C. acnes phylotypes are associated with acne, whereas others are associated with healthy skin. Here we investigate if the evolution of a C. acnes enzyme contributes to health or acne. Two hyaluronidase variants exclusively expressed by C. acnes strains, HylA and HylB, demonstrate remarkable clinical correlation with acne or health. We show that HylA is strongly pro-inflammatory, and HylB is modestly anti-inflammatory in a murine (female) acne model. Structural and phylogenic studies suggest that the enzymes evolved from a common hyaluronidase that acquired distinct enzymatic activity. Health-associated HylB degrades hyaluronic acid (HA) exclusively to HA disaccharides leading to reduced inflammation, whereas HylA generates large-sized HA fragments that drive robust TLR2-dependent pathology. Replacing an amino acid, Serine to Glycine near the HylA catalytic site enhances the enzymatic activity of HylA and produces an HA degradation pattern intermediate to HylA and HylB. Selective targeting of HylA using peptide vaccine or inhibitors alleviates acne pathology. We suggest that the functional divergence of HylA and HylB is a major driving force behind C. acnes health- and acne- phenotype and propose targeting of HylA as an approach for acne therapy.


  • Organizational Affiliation

    Department of Pediatrics, University of California San Diego, San Diego, CA, 92093, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Hyaluronate lyase
A, B
765Cutibacterium acnes HL043PA1Mutation(s): 1 
Gene Names: HMPREF9570_01449
EC: 4.2.2.1
UniProt
Find proteins for A0A2B7ICX0 (Cutibacterium acnes)
Explore A0A2B7ICX0 
Go to UniProtKB:  A0A2B7ICX0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A2B7ICX0
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.225 
  • R-Value Observed: 0.226 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 51.96α = 90.61
b = 59.42β = 95.74
c = 125.99γ = 90.08
Software Package:
Software NamePurpose
PHENIXrefinement
XSCALEdata scaling
XDSdata reduction
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesR01AI141401

Revision History  (Full details and data files)

  • Version 1.0: 2023-12-13
    Type: Initial release