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SARS-CoV-2 replication-transcription complex bound to nsp13 helicase - nsp13(1)-RTC

Electron Microscopy
3.17Å resolution
PDB entry 7re2 coloured by chain, front view.
PDB entry 7re2 coloured by chain, side view.
PDB entry 7re2 coloured by chain, top view.
Source organism: Severe acute respiratory syndrome coronavirus 2
Assembly composition:
hetero heptamer (preferred)
Entry contents: 4 distinct polypeptide molecules
2 distinct RNA molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: 3C-like proteinase nsp5 and RNA
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Multimeric state: hetero heptamer
Accessible surface area: 91428.2 Å2
Buried surface area: 23699.3 Å2
Dissociation area: 965.81 Å2
Dissociation energy (ΔGdiss): 1.91 kcal/mol
Dissociation entropy (TΔSdiss): 15.71 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-145027

Macromolecules

RNA-directed RNA polymerase nsp12
Chain: A
Length: 932 amino acids
Theoretical weight: 106.78 KDa
Source organism: Severe acute respiratory syndrome coronavirus 2
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P0DTD1 (Residues: 4393-5324; Coverage: 13%)
Gene names: 1a-1b, rep
Pfam:
InterPro:
RNA-directed RNA polymerase nsp12 in PDB entry 7re2, assembly 1, front view.
RNA-directed RNA polymerase nsp12 in PDB entry 7re2, assembly 1, side view.
RNA-directed RNA polymerase nsp12 in PDB entry 7re2, assembly 1, top view.
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Non-structural protein 8
Chains: B, D
Length: 199 amino acids
Theoretical weight: 22.03 KDa
Source organism: Severe acute respiratory syndrome coronavirus 2
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P0DTD1 (Residues: 3942-4140; Coverage: 3%)
Gene names: 1a-1b, rep
Pfam: Coronavirus replicase NSP8
InterPro:
Non-structural protein 8 in PDB entry 7re2, assembly 1, front view.
Non-structural protein 8 in PDB entry 7re2, assembly 1, side view.
Non-structural protein 8 in PDB entry 7re2, assembly 1, top view.
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Non-structural protein 7
Chain: C
Length: 88 amino acids
Theoretical weight: 9.75 KDa
Source organism: Severe acute respiratory syndrome coronavirus 2
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P0DTD1 (Residues: 3860-3942; Coverage: 1%)
Gene names: 1a-1b, rep
Pfam: Coronavirus replicase NSP7
InterPro:
Non-structural protein 7 in PDB entry 7re2, assembly 1, front view.
Non-structural protein 7 in PDB entry 7re2, assembly 1, side view.
Non-structural protein 7 in PDB entry 7re2, assembly 1, top view.
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Helicase nsp13
Chain: E
Length: 605 amino acids
Theoretical weight: 67.35 KDa
Source organism: Severe acute respiratory syndrome coronavirus 2
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P0DTD1 (Residues: 5325-5925; Coverage: 9%)
Gene names: 1a-1b, rep
Pfam:
InterPro:
Helicase nsp13 in PDB entry 7re2, assembly 1, front view.
Helicase nsp13 in PDB entry 7re2, assembly 1, side view.
Helicase nsp13 in PDB entry 7re2, assembly 1, top view.
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RNA chain P
Name: Product RNA
Representative chains: P
Length: 35 nucleotides
Theoretical weight: 11.14 KDa
Product RNA in PDB entry 7re2, assembly 1, front view.
Product RNA in PDB entry 7re2, assembly 1, side view.
Product RNA in PDB entry 7re2, assembly 1, top view.
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RNA chain T
Name: Template RNA
Representative chains: T
Length: 55 nucleotides
Theoretical weight: 17.57 KDa
Template RNA in PDB entry 7re2, assembly 1, front view.
Template RNA in PDB entry 7re2, assembly 1, side view.
Template RNA in PDB entry 7re2, assembly 1, top view.
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