› 6k9c

X-ray diffraction
2.41Å resolution

The apo structure of NrS-1 C terminal region (305-718)

Released:
DOI: 10.2210/pdb6k9c/pdb
Model geometry
Fit model/data
PDB entry 6k9c coloured by chain, front view.
PDB entry 6k9c coloured by chain, side view.
PDB entry 6k9c coloured by chain, top view.
Source organism: Nitratiruptor phage NrS-1
Primary publication:
Structural studies reveal a ring-shaped architecture of deep-sea vent phage NrS-1 polymerase.
Chen X, Su S, Chen Y, Gao Y, Li Y, Shao Z, Zhang Y, Shao Q, Liu H, Li J, Ma J, Gan J
OpenAccess logo Nucleic Acids Res 48 3343-3355 (2020)
PMID: 32016421

Function and Biology Details

Reactions catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
ATP + H(2)O = ADP + phosphate
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-126038 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
DNA Primase-polymerase Chains: A, B
Molecule details ›
Chains: A, B
Length: 416 amino acids
Theoretical weight: 48.36 KDa
Source organism: Nitratiruptor phage NrS-1
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: M5AAG8 (Residues: 303-718; Coverage: 58%)
Gene name: 28
Sequence domains:

Ligands and Environments

2 bound ligands:
Ligand HG 2 x HG
Ligand SO4 5 x SO4
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: SSRF BEAMLINE BL17U1
Spacegroup: P213
Unit cell:
a: 161.13Å b: 161.13Å c: 161.13Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.195 0.193 0.241
Expression system: Escherichia coli BL21(DE3)

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Citations

2 review citations

Bacteriophage-Encoded DNA Polymerases-Beyond the Traditional View of Polymerase Activities.
Morcinek-Orłowska et al. (2022)
1 more

2 mentions without citation

Structural studies reveal a ring-shaped architecture of deep-sea vent phage NrS-1 polymerase.
Chen et al. (2020)
1 more