Experimental Data Snapshot

  • Resolution: 3.08 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.271 
  • R-Value Observed: 0.272 

wwPDB Validation   3D Report Full Report

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Structural insights into the promiscuous DNA binding and broad substrate selectivity of fowlpox virus resolvase.

Li, N.Shi, K.Rao, T.Banerjee, S.Aihara, H.

(2020) Sci Rep 10: 393-393

  • DOI: https://doi.org/10.1038/s41598-019-56825-w
  • Primary Citation of Related Structures:  
    6P7A, 6P7B

  • PubMed Abstract: 

    Fowlpox virus resolvase (Fpr) is an endonuclease that cleaves a broad range of branched DNA structures, including the Holliday junction (HJ), with little sequence-specificity. To better understand the mechanisms underlying its relaxed substrate specificity, we determined the crystal structures of Fpr and that in a novel complex with HJ at 3.1-Å resolution. In the Fpr-HJ complex, two Fpr dimers use several distinct regions to interact with different DNA structural motifs, showing versatility in DNA-binding. Biochemical and solution NMR data support the existence of non-canonical modes of HJ interaction in solution. The binding of Fpr to various DNA motifs are mediated by its flat DNA-binding surface, which is centered on a short loop spanning K61 to I72 and flanked by longer α-helices at the outer edges, and basic side grooves near the dimer interface. Replacing the Fpr loop K61~I72 with a longer loop from Thermus thermophilus RuvC (E71~A87) endows Fpr with an enhanced selectivity toward HJ cleavage but with a target sequence preference distinct from that of RuvC, highlighting a unique role of this loop region in Fpr-HJ interaction. Our work helps explain the broad substrate selectivity of Fpr and suggests a possible mode of its association with poxvirus hairpin telomeres.

  • Organizational Affiliation

    Department of Biochemistry, Molecular Biology, and Biophysics, University of Minnesota, 6-155 Jackson Hall, 321 Church Street S.E. Minneapolis, Minneapolis, MN, 55455, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Holliday junction resolvase
A, B
148Fowlpox virusMutation(s): 0 
Gene Names: FPV187
Find proteins for Q9J546 (Fowlpox virus (strain NVSL))
Explore Q9J546 
Go to UniProtKB:  Q9J546
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9J546
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 3.08 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.271 
  • R-Value Observed: 0.272 
  • Space Group: P 32
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 82.62α = 90
b = 82.62β = 90
c = 68.756γ = 120
Software Package:
Software NamePurpose
XDSdata reduction
XDSdata scaling

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM118047

Revision History  (Full details and data files)

  • Version 1.0: 2020-04-29
    Type: Initial release
  • Version 1.1: 2024-03-13
    Changes: Data collection, Database references