Crystal structure of Heme Binding protein, an autotransporter hemoglobine protease from pathogenic Escherichia coli

Experimental Data Snapshot

  • Resolution: 2.20 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.203 
  • R-Value Observed: 0.205 

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Crystal structure of heme binding protein, an autotransporter hemoglobin protease from pathogenic escherichia coli

Otto, B.R.Sijbrandi, R.Luirink, J.Oudega, B.Heddle, J.G.Mizutani, K.Park, S.-Y.Tame, J.R.H.

(2005) J Biol Chem 280: 17339-17345

  • DOI: https://doi.org/10.1074/jbc.M412885200
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    The acquisition of iron is essential for the survival of pathogenic bacteria, which have consequently evolved a wide variety of uptake systems to extract iron and heme from host proteins such as hemoglobin. Hemoglobin protease (Hbp) was discovered as a factor involved in the symbiosis of pathogenic Escherichia coli and Bacteroides fragilis, which cause intra-abdominal abscesses. Released from E. coli, this serine protease autotransporter degrades hemoglobin and delivers heme to both bacterial species. The crystal structure of the complete passenger domain of Hbp (110 kDa) is presented, which is the first structure from this class of serine proteases and the largest parallel beta-helical structure yet solved.

  • Organizational Affiliation

    Department of Molecular Microbiology, Faculty of Earth and Life Sciences, Vrije Universiteit de Boelelaan 1085, 1081 HV Amsterdam, The Netherlands.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
haemoglobin protease1,048Escherichia coliMutation(s): 0 
Gene Names: HBP
Membrane Entity: Yes 
Find proteins for O88093 (Escherichia coli)
Explore O88093 
Go to UniProtKB:  O88093
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO88093
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.20 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.203 
  • R-Value Observed: 0.205 
  • Space Group: P 61 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 115.028α = 90
b = 115.028β = 90
c = 437.057γ = 120
Software Package:
Software NamePurpose
HKL-2000data reduction
SCALEPACKdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2005-03-01
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2024-03-13
    Changes: Data collection, Database references