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Yates LA, Aramayo RJ, Pokhrel N, Caldwell CC, Kaplan JA, Perera RL, Spies M, Antony E, Zhang X. A structural and dynamic model for the assembly of Replication Protein A on single-stranded DNA. Nat Commun 2018; 9:5447. [PMID: 30575763 PMCID: PMC6303327 DOI: 10.1038/s41467-018-07883-7] [Citation(s) in RCA: 104] [Impact Index Per Article: 14.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2018] [Accepted: 12/03/2018] [Indexed: 12/04/2022] Open
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.
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Affiliation(s)
- Luke A Yates
- Section of Structural Biology, Department of Medicine, Imperial College London, Sir Alexander Fleming Building, South Kensington, London, SW7 2AZ, UK
| | - Ricardo J Aramayo
- Section of Structural Biology, Department of Medicine, Imperial College London, Sir Alexander Fleming Building, South Kensington, London, SW7 2AZ, UK
| | - Nilisha Pokhrel
- Department of Biological Sciences, Marquette University, Milwaukee, WI, 53201, USA
| | - Colleen C Caldwell
- Department of Biochemistry, Carver College of Medicine, University of Iowa, Iowa City, IA, 52241, USA
| | - Joshua A Kaplan
- Section of Structural Biology, Department of Medicine, Imperial College London, Sir Alexander Fleming Building, South Kensington, London, SW7 2AZ, UK
| | - Rajika L Perera
- Section of Structural Biology, Department of Medicine, Imperial College London, Sir Alexander Fleming Building, South Kensington, London, SW7 2AZ, UK
- Poseidon LLC, 2265 East Foothill Boulevard, Pasadena, CA, 91107, USA
| | - Maria Spies
- Department of Biochemistry, Carver College of Medicine, University of Iowa, Iowa City, IA, 52241, USA
| | - Edwin Antony
- Department of Biological Sciences, Marquette University, Milwaukee, WI, 53201, USA
| | - Xiaodong Zhang
- Section of Structural Biology, Department of Medicine, Imperial College London, Sir Alexander Fleming Building, South Kensington, London, SW7 2AZ, UK.
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