6YXQ

Crystal structure of a DNA repair complex ASCC3-ASCC2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.204 
  • R-Value Observed: 0.206 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

The interaction of DNA repair factors ASCC2 and ASCC3 is affected by somatic cancer mutations.

Jia, J.Absmeier, E.Holton, N.Pietrzyk-Brzezinska, A.J.Hackert, P.Bohnsack, K.E.Bohnsack, M.T.Wahl, M.C.

(2020) Nat Commun 11: 5535-5535

  • DOI: https://doi.org/10.1038/s41467-020-19221-x
  • Primary Citation of Related Structures:  
    6YXQ

  • PubMed Abstract: 

    The ASCC3 subunit of the activating signal co-integrator complex is a dual-cassette Ski2-like nucleic acid helicase that provides single-stranded DNA for alkylation damage repair by the α-ketoglutarate-dependent dioxygenase AlkBH3. Other ASCC components integrate ASCC3/AlkBH3 into a complex DNA repair pathway. We mapped and structurally analyzed interacting ASCC2 and ASCC3 regions. The ASCC3 fragment comprises a central helical domain and terminal, extended arms that clasp the compact ASCC2 unit. ASCC2-ASCC3 interfaces are evolutionarily highly conserved and comprise a large number of residues affected by somatic cancer mutations. We quantified contributions of protein regions to the ASCC2-ASCC3 interaction, observing that changes found in cancers lead to reduced ASCC2-ASCC3 affinity. Functional dissection of ASCC3 revealed similar organization and regulation as in the spliceosomal RNA helicase Brr2. Our results delineate functional regions in an important DNA repair complex and suggest possible molecular disease principles.


  • Organizational Affiliation

    Laboratory of Structural Biochemistry, Freie Universität Berlin, D-14195, Berlin, Germany.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Activating signal cointegrator 1 complex subunit 3211Homo sapiensMutation(s): 0 
Gene Names: ASCC3HELIC1
EC: 3.6.4.12
UniProt & NIH Common Fund Data Resources
Find proteins for Q8N3C0 (Homo sapiens)
Explore Q8N3C0 
Go to UniProtKB:  Q8N3C0
PHAROS:  Q8N3C0
GTEx:  ENSG00000112249 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8N3C0
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Activating signal cointegrator 1 complex subunit 2438Homo sapiensMutation(s): 0 
Gene Names: ASCC2ASC1P100
UniProt & NIH Common Fund Data Resources
Find proteins for Q9H1I8 (Homo sapiens)
Explore Q9H1I8 
Go to UniProtKB:  Q9H1I8
PHAROS:  Q9H1I8
GTEx:  ENSG00000100325 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9H1I8
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
MSE
Query on MSE
B
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.204 
  • R-Value Observed: 0.206 
  • Space Group: I 4
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 158.108α = 90
b = 158.108β = 90
c = 69.365γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
AutoSolphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research Foundation (DFG)GermanyQBI-FUB Collaborative Integrative Structural Biology Initiative
German Research Foundation (DFG)GermanyBO3442/1-2

Revision History  (Full details and data files)

  • Version 1.0: 2020-09-30
    Type: Initial release
  • Version 1.1: 2020-10-14
    Changes: Structure summary
  • Version 1.2: 2020-11-11
    Changes: Database references
  • Version 1.3: 2020-11-18
    Changes: Database references