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CryoEM structure of DNA Polymerase alpha - primase bound to SARS CoV nsp1

Electron Microscopy
4.12Å resolution
PDB entry 7opl coloured by chain, front view.
PDB entry 7opl coloured by chain, side view.
PDB entry 7opl coloured by chain, top view.
Source organisms:
Assembly composition:
hetero pentamer (preferred)
Entry contents: 5 distinct polypeptide molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: DNA polymerase alpha:primase complex and 3C-like proteinase nsp5
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Multimeric state: hetero pentamer
Accessible surface area: 109085.68 Å2
Buried surface area: 14833.46 Å2
Dissociation area: 686.12 Å2
Dissociation energy (ΔGdiss): -3.75 kcal/mol
Dissociation entropy (TΔSdiss): 12.23 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-140800

Macromolecules

DNA polymerase alpha catalytic subunit
Chain: A
Length: 1170 amino acids
Theoretical weight: 133.7 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P09884 (Residues: 334-1462; Coverage: 77%)
Gene names: POLA, POLA1
Pfam:
InterPro:
DNA polymerase alpha catalytic subunit in PDB entry 7opl, assembly 1, front view.
DNA polymerase alpha catalytic subunit in PDB entry 7opl, assembly 1, side view.
DNA polymerase alpha catalytic subunit in PDB entry 7opl, assembly 1, top view.
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DNA polymerase alpha subunit B
Chain: B
Length: 452 amino acids
Theoretical weight: 49.86 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q14181 (Residues: 149-598; Coverage: 75%)
Gene name: POLA2
Pfam:
InterPro:
DNA polymerase alpha subunit B in PDB entry 7opl, assembly 1, front view.
DNA polymerase alpha subunit B in PDB entry 7opl, assembly 1, side view.
DNA polymerase alpha subunit B in PDB entry 7opl, assembly 1, top view.
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DNA primase small subunit
Chain: C
Length: 441 amino acids
Theoretical weight: 52.59 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P49642 (Residues: 1-420; Coverage: 100%)
Gene name: PRIM1
Pfam: DNA primase small subunit
InterPro:
DNA primase small subunit in PDB entry 7opl, assembly 1, front view.
DNA primase small subunit in PDB entry 7opl, assembly 1, side view.
DNA primase small subunit in PDB entry 7opl, assembly 1, top view.
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DNA primase large subunit
Chain: D
Length: 509 amino acids
Theoretical weight: 58.89 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P49643 (Residues: 1-509; Coverage: 100%)
Gene names: PRIM2, PRIM2A
Pfam: Eukaryotic and archaeal DNA primase, large subunit
InterPro:
DNA primase large subunit in PDB entry 7opl, assembly 1, front view.
DNA primase large subunit in PDB entry 7opl, assembly 1, side view.
DNA primase large subunit in PDB entry 7opl, assembly 1, top view.
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Host translation inhibitor nsp1
Chain: E
Length: 119 amino acids
Theoretical weight: 12.96 KDa
Source organism: Severe acute respiratory syndrome-related coronavirus
Expression system: Escherichia coli
UniProt:
  • Canonical: P0C6U8 (Residues: 13-127; Coverage: 3%)
Gene name: 1a
Pfam: Betacoronavirus replicase NSP1
InterPro:
Host translation inhibitor nsp1 in PDB entry 7opl, assembly 1, front view.
Host translation inhibitor nsp1 in PDB entry 7opl, assembly 1, side view.
Host translation inhibitor nsp1 in PDB entry 7opl, assembly 1, top view.
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