8RHN

Structure of the 55LCC ATPase complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: in silico
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wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

The SPATA5-SPATA5L1 ATPase complex directs replisome proteostasis to ensure genome integrity.

Krishnamoorthy, V.Foglizzo, M.Dilley, R.L.Wu, A.Datta, A.Dutta, P.Campbell, L.J.Degtjarik, O.Musgrove, L.J.Calabrese, A.N.Zeqiraj, E.Greenberg, R.A.

(2024) Cell 187: 2250

  • DOI: https://doi.org/10.1016/j.cell.2024.03.002
  • Primary Citation of Related Structures:  
    8CIH, 8RHN

  • PubMed Abstract: 

    Ubiquitin-dependent unfolding of the CMG helicase by VCP/p97 is required to terminate DNA replication. Other replisome components are not processed in the same fashion, suggesting that additional mechanisms underlie replication protein turnover. Here, we identify replisome factor interactions with a protein complex composed of AAA+ ATPases SPATA5-SPATA5L1 together with heterodimeric partners C1orf109-CINP (55LCC). An integrative structural biology approach revealed a molecular architecture of SPATA5-SPATA5L1 N-terminal domains interacting with C1orf109-CINP to form a funnel-like structure above a cylindrically shaped ATPase motor. Deficiency in the 55LCC complex elicited ubiquitin-independent proteotoxicity, replication stress, and severe chromosome instability. 55LCC showed ATPase activity that was specifically enhanced by replication fork DNA and was coupled to cysteine protease-dependent cleavage of replisome substrates in response to replication fork damage. These findings define 55LCC-mediated proteostasis as critical for replication fork progression and genome stability and provide a rationale for pathogenic variants seen in associated human neurodevelopmental disorders.


  • Organizational Affiliation

    Department of Cancer Biology, Penn Center for Genome Integrity, Basser Center for BRCA, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104-6160, USA.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ATPase family gene 2 protein homolog A920Homo sapiensMutation(s): 0 
Gene Names: AFG2ASPAFSPATA5
EC: 3.6.4.10
UniProt & NIH Common Fund Data Resources
Find proteins for Q8NB90 (Homo sapiens)
Explore Q8NB90 
Go to UniProtKB:  Q8NB90
GTEx:  ENSG00000145375 
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Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8NB90
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
ATPase family gene 2 protein homolog BE [auth O],
F [auth P],
O [auth I],
P [auth J]
777Homo sapiensMutation(s): 0 
Gene Names: AFG2BSPATA5L1
EC: 3.6.4.10
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BVQ7 (Homo sapiens)
Explore Q9BVQ7 
Go to UniProtKB:  Q9BVQ7
PHAROS:  Q9BVQ7
GTEx:  ENSG00000171763 
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Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9BVQ7
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
cDNA FLJ55172G [auth A],
H [auth B]
264Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NX04 (Homo sapiens)
Explore Q9NX04 
Go to UniProtKB:  Q9NX04
PHAROS:  Q9NX04
GTEx:  ENSG00000116922 
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UniProt GroupQ9NX04
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Cyclin-dependent kinase 2-interacting proteinI [auth C],
J [auth D]
237Homo sapiensMutation(s): 0 
Gene Names: CINP
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BW66 (Homo sapiens)
Explore Q9BW66 
Go to UniProtKB:  Q9BW66
PHAROS:  Q9BW66
GTEx:  ENSG00000100865 
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UniProt GroupQ9BW66
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC4.0.1
MODEL REFINEMENTPHENIX1.17.1

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Medical Research Council (MRC, United Kingdom)United KingdomMR/T029471/1
Wellcome TrustUnited Kingdom222531/Z/21/Z
Wellcome TrustUnited Kingdom221524/Z/20/Z

Revision History  (Full details and data files)

  • Version 1.0: 2024-03-27
    Type: Initial release
  • Version 1.1: 2024-04-10
    Changes: Database references
  • Version 1.2: 2024-05-08
    Changes: Database references