› 6dgd

X-ray diffraction
2.82Å resolution

PriA helicase bound to dsDNA of a DNA replication fork

Released:
DOI: 10.2210/pdb6dgd/pdb
PDB entry 6dgd coloured by chain, front view.
PDB entry 6dgd coloured by chain, side view.
PDB entry 6dgd coloured by chain, top view.
Source organisms:
Primary publication:
Structure-specific DNA replication-fork recognition directs helicase and replication restart activities of the PriA helicase.
Windgassen TA, Leroux M, Satyshur KA, Sandler SJ, Keck JL
Proc Natl Acad Sci U S A 115 E9075-E9084 (2018)
PMID: 30201718

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-103828 (preferred)
Entry contents:
1 distinct polypeptide molecule
3 distinct DNA molecules
Macromolecules (4 distinct):
Primosomal protein N' Chains: A, B
Molecule details ›
Chains: A, B
Length: 751 amino acids
Theoretical weight: 83.6 KDa
Source organism: Klebsiella pneumoniae
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A1W2ITH4 (Residues: 1-731; Coverage: 100%)
Gene names: FXN67_21480, NCTC13465_05436, NCTC5052_03694, NCTC5053_03165, NCTC9601_04695, NCTC9645_05604, NCTC9661_00854, SAMEA3512100_04598, SAMEA3673026_04489, SAMEA4370542_04578, VKR_04953, priA
Sequence domains:
DNA (5'-D(P*AP*GP*CP*AP*CP*GP*CP*CP*GP*AP*CP*T)-3') Chain: W
Molecule details ›
Chain: W
Length: 12 nucleotides
Theoretical weight: 3.63 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(P*GP*TP*CP*GP*GP*CP*GP*TP*GP*CP*TP*C)-3') Chains: X, Z
Molecule details ›
Chains: X, Z
Length: 12 nucleotides
Theoretical weight: 3.67 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(P*GP*AP*GP*CP*AP*CP*GP*CP*CP*GP*AP*CP*T)-3') Chain: Y
Molecule details ›
Chain: Y
Length: 13 nucleotides
Theoretical weight: 3.96 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand ZN 4 x ZN
Ligand SO4 13 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-D
Spacegroup: P212121
Unit cell:
a: 100.56Å b: 106.76Å c: 256.83Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.248 0.248 0.29
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

4 review citations

DNA Helicase-SSB Interactions Critical to the Regression and Restart of Stalled DNA Replication forks in Escherichia coli.
Bianco PR. (2020)
3 more

5 mentions without citation

The mechanism of action of the SSB interactome reveals it is the first OB-fold family of genome guardians in prokaryotes.
Bianco PR. (2021)
4 more