2K35

Hydramacin-1: Structure and antibacterial activity of a peptide from the basal metazoan Hydra


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 500 
  • Conformers Submitted: 25 
  • Selection Criteria: target function 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Hydramacin-1, structure and antibacterial activity of a protein from the Basal metazoan hydra.

Jung, S.Dingley, A.J.Augustin, R.Anton-Erxleben, F.Stanisak, M.Gelhaus, C.Gutsmann, T.Hammer, M.U.Podschun, R.Bonvin, A.M.Leippe, M.Bosch, T.C.Grotzinger, J.

(2009) J Biol Chem 284: 1896-1905

  • DOI: 10.1074/jbc.M804713200
  • Primary Citation of Related Structures:  
    2K35

  • PubMed Abstract: 
  • Hydramacin-1 is a novel antimicrobial protein recently discovered during investigations of the epithelial defense of the ancient metazoan Hydra. The amino acid sequence of hydramacin-1 shows no sequence homology to any known antimicrobial proteins. Determination of the solution structure revealed that hydramacin-1 possesses a disulfide bridge-stabilized alphabeta motif ...

    Hydramacin-1 is a novel antimicrobial protein recently discovered during investigations of the epithelial defense of the ancient metazoan Hydra. The amino acid sequence of hydramacin-1 shows no sequence homology to any known antimicrobial proteins. Determination of the solution structure revealed that hydramacin-1 possesses a disulfide bridge-stabilized alphabeta motif. This motif is the common scaffold of the knottin protein fold. The structurally closest relatives are the scorpion oxin-like superfamily. Within this superfamily hydramacin-1 establishes a new family of proteins that all share antimicrobial activity. Hydramacin-1 is potently active against Gram-positive and Gram-negative bacteria including multi-resistant human pathogenic strains. It leads to aggregation of bacteria as an initial step of its bactericidal mechanism. Aggregated cells are connected via electron-dense contacts and adopt a thorn apple-like morphology. Analysis of the hydramacin-1 structure revealed an unusual distribution of amino acid side chains on the surface. A belt of positively charged residues is sandwiched by two hydrophobic areas. Based on this characteristic surface feature and on biophysical analysis of protein-membrane interactions, we propose a model that describes the aggregation effect exhibited by hydramacin-1.


    Organizational Affiliation

    Institute of Biochemistry and Institute of Zoology, Zoophysiology, Christian-Albrechts-University of Kiel, Olshausenstrasse 40, 24098 Kiel, Germany.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
hydramacin-1A60HydraMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for B3RFR8 (Hydra vulgaris)
Explore B3RFR8 
Go to UniProtKB:  B3RFR8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupB3RFR8
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 500 
  • Conformers Submitted: 25 
  • Selection Criteria: target function 
  • OLDERADO: 2K35 Olderado

Structure Validation

View Full Validation Report




Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2008-11-18
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2022-03-16
    Changes: Database references, Derived calculations