7DA2

The crystal structure of the chicken FANCM-MHF complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.79 Å
  • R-Value Free: 0.262 
  • R-Value Work: 0.216 
  • R-Value Observed: 0.218 

wwPDB Validation   3D Report Full Report


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Literature

Structural analysis of the chicken FANCM-MHF complex and its stability.

Ito, S.Nishino, T.

(2021) Acta Crystallogr F Struct Biol Commun 77: 1-7

  • DOI: 10.1107/S2053230X20016003
  • Primary Citation of Related Structures:  
    7DA2, 7DA0, 7DA1

  • PubMed Abstract: 
  • FANCM is involved in eukaryotic DNA-damage recognition and activates the Fanconi anemia (FA) pathway through complex formation. MHF is one of the FANCM-associating components and contains a histone-fold DNA-binding domain. Loss of the FANCM-MHF interaction compromises the activation of the FA pathway, resulting in chromosomal instability ...

    FANCM is involved in eukaryotic DNA-damage recognition and activates the Fanconi anemia (FA) pathway through complex formation. MHF is one of the FANCM-associating components and contains a histone-fold DNA-binding domain. Loss of the FANCM-MHF interaction compromises the activation of the FA pathway, resulting in chromosomal instability. Thus, formation of the FANCM-MHF complex is important for function, but its nature largely remains elusive. Here, the aim was to reveal the molecular and structural basis for the stability of the FANCM-MHF complex. A recombinant tripartite complex containing chicken FANCM (MHF interaction region), MHF1 and MHF2 was expressed and purified. The purified tripartite complex was crystallized under various conditions and three different crystals were obtained from similar crystallization conditions. Unexpectedly, structure determination revealed that one of the crystals contained the FANCM-MHF complex but that the other two contained the MHF complex without FANCM. How FANCM dissociates from MHF was further investigated and it was found that the presence of 2-methyl-2,4-pentanediol (MPD) and an oxidative environment may have promoted its release. However, under these conditions MHF retained its complexed form. FANCM-MHF interaction involves a mixture of hydrophobic/hydrophilic interactions, and chicken FANCM contains several nonconserved cysteines within this region which may lead to aggregation with other FANCM-MHF molecules. These results indicate an unexpected nature of the FANCM-MHF complex and the data can be used to improve the stability of the complex for biochemical and structural analyses.


    Organizational Affiliation

    Department of Biological Science and Technology, Faculty of Industrial Science and Technology, Tokyo University of Science, 6-3-1 Niijyuku, Katsushika-ku, Tokyo 125-8585, Japan.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Centromere protein SA, B [auth C]107Gallus gallusMutation(s): 3 
Gene Names: CENPSAPITD1
UniProt
Find proteins for E1BSW7 (Gallus gallus)
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Go to UniProtKB:  E1BSW7
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Centromere protein XC [auth B], D81Gallus gallusMutation(s): 0 
Gene Names: CENPXSTRA13
UniProt
Find proteins for P0DJH7 (Gallus gallus)
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Fanconi anemia group M proteinE148Gallus gallusMutation(s): 0 
Gene Names: FANCM
EC: 3.6.4.13
UniProt
Find proteins for A0A1D5PRR9 (Gallus gallus)
Explore A0A1D5PRR9 
Go to UniProtKB:  A0A1D5PRR9
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.79 Å
  • R-Value Free: 0.262 
  • R-Value Work: 0.216 
  • R-Value Observed: 0.218 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 71.249α = 90
b = 78.469β = 90
c = 87.468γ = 90
Software Package:
Software NamePurpose
HKL-2000data processing
PHENIXrefinement
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data

  • Deposited Date: 2020-10-14 
  • Released Date: 2021-03-17 
  • Deposition Author(s): Nishino, T., Ito, S.

Funding OrganizationLocationGrant Number
Japan Society for the Promotion of Science (JSPS)Japan16K07279
Japan Society for the Promotion of Science (JSPS)Japan20K06512

Revision History  (Full details and data files)

  • Version 1.0: 2021-03-17
    Type: Initial release