6NIV

Racemic Phenol-Soluble Modulin Alpha 3 Peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.45 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.179 
  • R-Value Observed: 0.183 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Use of a Stereochemical Strategy To Probe the Mechanism of Phenol-Soluble Modulin alpha 3 Toxicity.

Yao, Z.Cary, B.P.Bingman, C.A.Wang, C.Kreitler, D.F.Satyshur, K.A.Forest, K.T.Gellman, S.H.

(2019) J Am Chem Soc 141: 7660-7664

  • DOI: 10.1021/jacs.9b00349
  • Primary Citation of Related Structures:  
    6NIV

  • PubMed Abstract: 
  • Phenol-soluble modulin α3 (PSMα3) is a cytotoxic peptide secreted by virulent strains of Staphylococcus aureus. We used a stereochemical strategy to examine the mechanism of PSMα3-mediated toxicity. One hypothesis is that PSMα3 toxicity requires fibril formation; an alternative is that toxicity is caused by soluble forms of PSMα3, possibly oligomeric ...

    Phenol-soluble modulin α3 (PSMα3) is a cytotoxic peptide secreted by virulent strains of Staphylococcus aureus. We used a stereochemical strategy to examine the mechanism of PSMα3-mediated toxicity. One hypothesis is that PSMα3 toxicity requires fibril formation; an alternative is that toxicity is caused by soluble forms of PSMα3, possibly oligomeric. We find that the unnatural enantiomer (D residues) displays cytotoxicity comparable to that of L-PSMα3. Racemic PSMα3 is similarly toxic to enantiopure PSMα3 (L or D) under some conditions, but the toxicity is lost under conditions that cause racemic PSMα3 to aggregate. A crystal structure of racemic PSMα3-NH 2 displays an α-helical secondary structure and a packing pattern that is reminiscent of the cross-α arrangement recently discovered in crystals of L-PSMα3. Our data suggest that the cytotoxicity of PSMα3 does not depend on stereospecific engagement of a target protein or other chiral macromolecule, an observation that supports a mechanism based on membrane disruption. In addition, our data support the hypothesis that toxicity is exerted by a soluble form rather than an insoluble fibrillar form.


    Organizational Affiliation

    Georg-August-Universität Göttingen, Abt. Biochemie II, Heinrich-Düker-Weg 12, Göttingen 37073, Germany.



Macromolecules

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Phenol-soluble modulin PSM-alpha-3A23Staphylococcus aureusMutation(s): 1 
Gene Names: 
UniProt
Find proteins for H9BRQ7 (Staphylococcus aureus)
Explore H9BRQ7 
Go to UniProtKB:  H9BRQ7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupH9BRQ7
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.45 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.179 
  • R-Value Observed: 0.183 
  • Space Group: P -1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 11.16α = 111.79
b = 28.36β = 94.27
c = 29.41γ = 95.12
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01GM061238
National Science Foundation (NSF, United States)United StatesIOS1353674
National Institutes of Health/National Cancer Institute (NIH/NCI)United StatesACB12002
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesAGM-120006

Revision History  (Full details and data files)

  • Version 1.0: 2019-05-15
    Type: Initial release
  • Version 1.1: 2019-05-29
    Changes: Data collection, Database references
  • Version 1.2: 2019-11-27
    Changes: Author supporting evidence