› 8g9l

Electron Microscopy
3.3Å resolution

DNA initiation subcomplex of Xenopus laevis DNA polymerase alpha-primase

Released:
DOI: 10.2210/pdb8g9l/pdb
PDB entry 8g9l coloured by chain, front view.
PDB entry 8g9l coloured by chain, side view.
PDB entry 8g9l coloured by chain, top view.
Source organism: Xenopus laevis
Primary publication:
A mechanistic model of primer synthesis from catalytic structures of DNA polymerase α-primase.
Mullins EA, Salay LE, Durie CL, Bradley NP, Jackman JE, Ohi MD, Chazin WJ, Eichman BF
Nat Struct Mol Biol (2024)
PMID: 38491139
Related structures: EMD-29871

Function and Biology Details

Reaction catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-199712 (preferred)
Entry contents:
2 distinct polypeptide molecules
1 distinct DNA molecule
1 distinct RNA molecule
Macromolecules (4 distinct):
DNA polymerase alpha catalytic subunit Chain: A
Molecule details ›
Chain: A
Length: 1127 amino acids
Theoretical weight: 129.01 KDa
Source organism: Xenopus laevis
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q9DE46 (Residues: 335-1458; Coverage: 77%)
Gene names: pola, pola1
Sequence domains:
DNA primase large subunit Chain: B
Molecule details ›
Chain: B
Length: 513 amino acids
Theoretical weight: 59.67 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A1L8G3G3 (Residues: 1-513; Coverage: 100%)
Gene name: prim2.S
Sequence domains: Eukaryotic and archaeal DNA primase, large subunit
DNA template Chain: C
RNA primer Chain: D

Ligands and Environments

3 bound ligands:
Ligand DGT 1 x DGT
Ligand MG 2 x MG
Ligand SF4 1 x SF4
2 modified residues:
Ligand GTP 1 x GTP
Ligand DOC 1 x DOC

Experiments and Validation Details

Entry percentile scores
Resolution: 3.3Å
Relevant EMDB volumes: EMD-29871
Expression systems:
  • Spodoptera frugiperda
  • Escherichia coli

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