4JWE

Crystal structure of the substrate binding domain of E.coli DnaK in complex with sheep Bac7(1-21)

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.226 
  • R-Value Work: 0.193 
  • R-Value Observed: 0.195 

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This is version 1.2 of the entry. See complete history. 


Literature

Structural Identification of DnaK Binding Sites within Bovine and Sheep Bactenecin Bac7.

Zahn, M., Kieslich, B., Berthold, N., Knappe, D., Hoffmann, R., Strater, N.

(2014) Protein Pept Lett 21: 407-412

  • DOI: 10.2174/09298665113206660111
  • Primary Citation of Related Structures:  
    4JWC, 4JWD, 4JWE, 4JWI

  • PubMed Abstract: 

    • Bacterial resistance against common antibiotics is an increasing health problem. New pharmaceuticals for the treatment of infections caused by resistant pathogens are needed. Small proline-rich antimicrobial peptides (PrAMPs) from insects are known to bind intracellularly to the conventional substrate binding cleft of the E ...

    Bacterial resistance against common antibiotics is an increasing health problem. New pharmaceuticals for the treatment of infections caused by resistant pathogens are needed. Small proline-rich antimicrobial peptides (PrAMPs) from insects are known to bind intracellularly to the conventional substrate binding cleft of the E. coli Hsp70 chaperone DnaK. Furthermore, bactenecins from mammals, members of the cathelicidin family, also contain potential DnaK binding sites. Crystal structures of bovine and sheep Bac7 in complex with the DnaK substrate binding domain show that the peptides bind in the forward binding mode with a leucine positioned in the central hydrophobic pocket. In most structures, proline and arginine residues preceding leucine occupy the hydrophobic DnaK binding sites -1 and -2. Within bovine Bac7, four potential DnaK binding sites were identified.

    Organizational Affiliation: 

    Institute of Bioanalytical Chemistry, Center for Biotechnology and Biomedicine, University of Leipzig, Deutscher Platz 5, 04103 Leipzig, Germany. strater@bbz.uni-leipzig.de.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Chaperone protein DnaKA, B219Escherichia coli K-12Mutation(s): 0 
Gene Names: dnaK, groP, grpF, seg, b0014, JW0013
UniProt
Find proteins for P0A6Y8 (Escherichia coli (strain K12))
Explore P0A6Y8 
Go to UniProtKB:  P0A6Y8
Entity Groups  
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UniProt GroupP0A6Y8
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Cathelicidin-3C, D21Ovis ariesMutation(s): 0 
Gene Names: CATHL3, BAC7, BAC7.5
UniProt
Find proteins for P50415 (Ovis aries)
Explore P50415 
Go to UniProtKB:  P50415
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP50415
Protein Feature View
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  • Reference Sequence
Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.226 
  • R-Value Work: 0.193 
  • R-Value Observed: 0.195 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 77.659α = 90
b = 162.531β = 90
c = 44.783γ = 90
Software Package:
Software NamePurpose
MAR345data collection
BUSTERrefinement
XDSdata reduction
SCALAdata scaling

Structure Validation

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View more in-depth experimental data

Entry History 

Deposition Data

  • Deposited Date: 2013-03-27 
  • Released Date: 2013-11-13 
    • Deposition Author(s): Zahn, M., Straeter, N.

Revision History  (Full details and data files)

  • Version 1.0: 2013-11-13
    Type: Initial release
  • Version 1.1: 2014-03-26
    Changes: Database references
  • Version 1.2: 2017-11-15
    Changes: Refinement description