3SZK

Crystal Structure of Human metHaemoglobin Complexed with the First NEAT Domain of IsdH from Staphylococcus aureus


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.01 Å
  • R-Value Free: 0.275 
  • R-Value Work: 0.245 
  • R-Value Observed: 0.247 

Starting Models: experimental
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This is version 1.2 of the entry. See complete history


Literature

Structural basis for hemoglobin capture by Staphylococcus aureus cell-surface protein, IsdH

Krishna Kumar, K.Jacques, D.A.Pishchany, G.Caradoc-Davies, T.Spirig, T.Malmirchegini, G.R.Langley, D.B.Dickson, C.F.Mackay, J.P.Clubb, R.T.Skaar, E.P.Guss, J.M.Gell, D.A.

(2011) J Biol Chem 286: 38439-38447

  • DOI: https://doi.org/10.1074/jbc.M111.287300
  • Primary Citation of Related Structures:  
    3SZK

  • PubMed Abstract: 

    Pathogens must steal iron from their hosts to establish infection. In mammals, hemoglobin (Hb) represents the largest reservoir of iron, and pathogens express Hb-binding proteins to access this source. Here, we show how one of the commonest and most significant human pathogens, Staphylococcus aureus, captures Hb as the first step of an iron-scavenging pathway. The x-ray crystal structure of Hb bound to a domain from the Isd (iron-regulated surface determinant) protein, IsdH, is the first structure of a Hb capture complex to be determined. Surface mutations in Hb that reduce binding to the Hb-receptor limit the capacity of S. aureus to utilize Hb as an iron source, suggesting that Hb sequence is a factor in host susceptibility to infection. The demonstration that pathogens make highly specific recognition complexes with Hb raises the possibility of developing inhibitors of Hb binding as antibacterial agents.


  • Organizational Affiliation

    School of Molecular Bioscience, University of Sydney, New South Wales 2006, Australia.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Hemoglobin subunit alphaA [auth D],
E [auth A]
141Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P69905 (Homo sapiens)
Explore P69905 
Go to UniProtKB:  P69905
PHAROS:  P69905
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UniProt GroupP69905
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Hemoglobin subunit betaB,
C [auth E]
146Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P68871 (Homo sapiens)
Explore P68871 
Go to UniProtKB:  P68871
PHAROS:  P68871
GTEx:  ENSG00000244734 
Entity Groups  
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UniProt GroupP68871
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Iron-regulated surface determinant protein HD [auth F],
F [auth C]
164Staphylococcus aureus subsp. aureus MW2Mutation(s): 0 
UniProt
Find proteins for Q8NW39 (Staphylococcus aureus (strain MW2))
Explore Q8NW39 
Go to UniProtKB:  Q8NW39
Entity Groups  
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UniProt GroupQ8NW39
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.01 Å
  • R-Value Free: 0.275 
  • R-Value Work: 0.245 
  • R-Value Observed: 0.247 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 65.88α = 90
b = 123.206β = 90
c = 143.933γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
PHASERphasing
REFMACrefinement
MOSFLMdata reduction
SCALEPACKdata scaling

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-09-14
    Type: Initial release
  • Version 1.1: 2012-05-09
    Changes: Database references
  • Version 1.2: 2023-11-01
    Changes: Data collection, Database references, Derived calculations, Refinement description