6I52

Yeast RPA bound to ssDNA


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

A structural and dynamic model for the assembly of Replication Protein A on single-stranded DNA.

Yates, L.A.Aramayo, R.J.Pokhrel, N.Caldwell, C.C.Kaplan, J.A.Perera, R.L.Spies, M.Antony, E.Zhang, X.

(2018) Nat Commun 9: 5447-5447

  • DOI: https://doi.org/10.1038/s41467-018-07883-7
  • Primary Citation of Related Structures:  
    6I52

  • PubMed Abstract: 

    Replication Protein A (RPA), the major eukaryotic single stranded DNA-binding protein, binds to exposed ssDNA to protect it from nucleases, participates in a myriad of nucleic acid transactions and coordinates the recruitment of other important players. RPA is a heterotrimer and coats long stretches of single-stranded DNA (ssDNA). The precise molecular architecture of the RPA subunits and its DNA binding domains (DBDs) during assembly is poorly understood. Using cryo electron microscopy we obtained a 3D reconstruction of the RPA trimerisation core bound with ssDNA (∼55 kDa) at ∼4.7 Å resolution and a dimeric RPA assembly on ssDNA. FRET-based solution studies reveal dynamic rearrangements of DBDs during coordinated RPA binding and this activity is regulated by phosphorylation at S178 in RPA70. We present a structural model on how dynamic DBDs promote the cooperative assembly of multiple RPAs on long ssDNA.


  • Organizational Affiliation

    Section of Structural Biology, Department of Medicine, Imperial College London, Sir Alexander Fleming Building, South Kensington, London, SW7 2AZ, UK.


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Replication factor A protein 3122Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RFA3YJL173CJ0506
UniProt
Find proteins for P26755 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P26755 
Go to UniProtKB:  P26755
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Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP26755
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Replication factor A protein 2132Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RFA2BUF1YNL312WN0368
UniProt
Find proteins for P26754 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P26754 
Go to UniProtKB:  P26754
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UniProt GroupP26754
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Replication factor A protein 1178Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RFA1BUF2RPA1YAR007CFUN3
UniProt
Find proteins for P22336 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P22336 
Go to UniProtKB:  P22336
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UniProt GroupP22336
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  • Reference Sequence

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Entity ID: 4
MoleculeChains LengthOrganismImage
DNA (5'-D(P*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*T)-3')20synthetic construct
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION
MODEL REFINEMENTPHENIX

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Wellcome TrustUnited Kingdom098412/Z/12/Z

Revision History  (Full details and data files)

  • Version 1.0: 2018-12-19
    Type: Initial release
  • Version 1.1: 2019-01-02
    Changes: Data collection, Database references