ISDA

Entry Detail

PDB ID:

8FAK

EMDB ID:

EMD-28959

Keywords:

HELICASE/DNA

Title:

DNA replication fork binding triggers structural changes in the PriA DNA helicase that regulate the PriA-PriB replication restart pathway in E. coli

Biological Source:

Source Organism:

Escherichia coli (strain K12), synthetic construct

Host Organism:

Escherichia coli BL21(DE3)

PDB Version:

Deposition Date:

2022-11-28

Release Date:

2023-05-10

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

3.22 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Description:Primosomal replication protein N
Chain IDs:A, B
Chain Length:104
Number of Molecules:2
Biological Source:Escherichia coli (strain K12)

UniProt ID:P07013 Pfam ID:PF22657

Polymer Type:polydeoxyribonucleotide
Description:DNA (5'-D(P*CP*AP*GP*AP*CP*TP*CP*AP*TP*TP*TP*AP*GP*CP*CP*CP*TP*TP*AP*TP*CP*CP*G)-3')
Chain IDs:C (auth: G)
Chain Length:40
Number of Molecules:1
Biological Source:synthetic construct

Protein Blast

Polymer Type:polypeptide(L)
Description:Primosomal protein N'
Chain IDs:D (auth: H)
Chain Length:732
Number of Molecules:1
Biological Source:Escherichia coli (strain K12)

UniProt ID:P17888 Pfam ID:PF17764, PF21213, PF00270, PF18319, PF00271, PF18074

Polymer Type:polydeoxyribonucleotide
Description:DNA (5'-D(P*CP*GP*GP*AP*TP*AP*AP*GP*GP*GP*CP*TP*GP*AP*GP*CP*AP*CP*GP*CP*CP*GP*A)-3')
Chain IDs:E (auth: J)
Chain Length:40
Number of Molecules:1
Biological Source:synthetic construct

Polymer Type:polydeoxyribonucleotide
Description:DNA (5'-D(P*TP*CP*GP*GP*CP*GP*TP*GP*CP*TP*C)-3')
Chain IDs:F (auth: Z)
Chain Length:15
Number of Molecules:1
Biological Source:synthetic construct

Ligand Molecules

Primary Citation

Replication fork binding triggers structural changes in the PriA helicase that govern DNA replication restart in E. coli.

Duckworth, A.T, Ducos, P.L, McMillan, S.D, Satyshur, K.A, Blumenthal, K.H, Deorio, H.R, Larson, J.A, Sandler, S.J, Grant, T, Keck, J.L.Show

Nat Commun 14 2725 2725 (2023)

PMID: 37169801 DOI: 10.1038/s41467-023-38144-x

Abstact

Bacterial replisomes often dissociate from replication forks before chromosomal replication is complete. To avoid the lethal consequences of such situations, bacteria have evolved replication restart pathways that reload replisomes onto prematurely terminated replication forks. To understand how the primary replication restart pathway in E. coli (PriA-PriB) selectively acts on replication forks, we determined the cryogenic-electron microscopy structure of a PriA/PriB/replication fork complex. Replication fork specificity arises from extensive PriA interactions with each arm of the branched DNA. These interactions reshape the PriA protein to create a pore encircling single-stranded lagging-strand DNA while also exposing a surface of PriA onto which PriB docks. Together with supporting biochemical and genetic studies, the structure reveals a switch-like mechanism for replication restart initiation in which restructuring of PriA directly couples replication fork recognition to PriA/PriB complex formation to ensure robust and high-fidelity replication re-initiation.

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Primary Citation of related structures