4REB

Structural Insights into 5' Flap DNA Unwinding and Incision by the Human FAN1 Dimer

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.20 Å
  • R-Value Free: 0.262 
  • R-Value Work: 0.230 
  • R-Value Observed: 0.232 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history. 


Literature

Structural insights into 5' flap DNA unwinding and incision by the human FAN1 dimer.

Zhao, Q., Xue, X., Longerich, S., Sung, P., Xiong, Y.

(2014) Nat Commun 5: 5726-5726

  • DOI: 10.1038/ncomms6726
  • Primary Citation of Related Structures:  
    4REA, 4REB, 4REC

  • PubMed Abstract: 

    • Human FANCD2-associated nuclease 1 (FAN1) is a DNA structure-specific nuclease involved in the processing of DNA interstrand crosslinks (ICLs). FAN1 maintains genomic stability and prevents tissue decline in multiple organs, yet it confers ICL-induced anti-cancer drug resistance in several cancer subtypes ...

    Human FANCD2-associated nuclease 1 (FAN1) is a DNA structure-specific nuclease involved in the processing of DNA interstrand crosslinks (ICLs). FAN1 maintains genomic stability and prevents tissue decline in multiple organs, yet it confers ICL-induced anti-cancer drug resistance in several cancer subtypes. Here we report three crystal structures of human FAN1 in complex with a 5' flap DNA substrate, showing that two FAN1 molecules form a head-to-tail dimer to locate the lesion, orient the DNA and unwind a 5' flap for subsequent incision. Biochemical experiments further validate our model for FAN1 action, as structure-informed mutations that disrupt protein dimerization, substrate orientation or flap unwinding impair the structure-specific nuclease activity. Our work elucidates essential aspects of FAN1-DNA lesion recognition and a unique mechanism of incision. These structural insights shed light on the cellular mechanisms underlying organ degeneration protection and cancer drug resistance mediated by FAN1.

    Organizational Affiliation: 

    Department of Molecular Biophysics and Biochemistry, Yale University School of Medicine, New Haven, Connecticut 06520, USA.



Macromolecules

Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Fanconi-associated nuclease 1 A, H647Homo sapiensMutation(s): 1 
Gene Names: FAN1, KIAA1018, MTMR15
EC: 3.1.21 (PDB Primary Data), 3.1.4.1 (PDB Primary Data)
Find proteins for Q9Y2M0 (Homo sapiens)
Explore Q9Y2M0 
Go to UniProtKB:  Q9Y2M0
NIH Common Fund Data Resources
PHAROS:  Q9Y2M0
GTEx:  ENSG00000198690
Protein Feature View
Expand
  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
    • Entity ID: 1
    MoleculeChainsLengthOrganismImage
    DNA (5'-D(P*GP*TP*GP*GP*CP*GP*AP*GP*C)-3')D9synthetic construct
    • Find similar nucleic acids by:  Sequence   |   Structure
      • Entity ID: 2
      MoleculeChainsLengthOrganismImage
      DNA (5'-D(P*CP*GP*TP*GP*GP*CP*GP*AP*GP*CP*GP*CP*TP*CP*GP*CP*CP*AP*CP*G)-3')E20synthetic construct
      • Find similar nucleic acids by:  Sequence   |   Structure
        • Entity ID: 3
        MoleculeChainsLengthOrganismImage
        DNA (5'-D(P*GP*CP*TP*CP*GP*CP*CP*AP*CP*G)-3')F10synthetic construct
        Small Molecules
        Ligands 1 Unique
        IDChainsName / Formula / InChI Key2D Diagram3D Interactions
        SM
        Query on SM
        Download Ideal Coordinates CCD File 
        A, H
        		SAMARIUM (III) ION
        Sm
        DOSGOCSVHPUUIA-UHFFFAOYSA-N        		 Ligand Interaction
        Experimental Data & Validation

        Experimental Data

        • Method: X-RAY DIFFRACTION
        • Resolution: 4.20 Å
        • R-Value Free: 0.262 
        • R-Value Work: 0.230 
        • R-Value Observed: 0.232 
        • Space Group: P 31
        Unit Cell:
        Length ( Å )Angle ( ˚ )
        a = 104.77α = 90
        b = 104.77β = 90
        c = 127.55γ = 120
        Software Package:
        Software NamePurpose
        REFMACrefinement
        PDB_EXTRACTdata extraction
        CBASSdata collection

        Structure Validation

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        View more in-depth experimental data

        Entry History 

        Deposition Data

        Revision History  (Full details and data files)

        • Version 1.0: 2014-12-24
          Type: Initial release
        • Version 1.1: 2015-01-14
          Changes: Database references