› 7m4h

X-ray diffraction
1.92Å resolution

DNA Polymerase Lambda, dCTP:At Mn2+ Reaction State Ternary Complex, 225 min

Released:
DOI: 10.2210/pdb7m4h/pdb
PDB entry 7m4h coloured by chain, front view.
PDB entry 7m4h coloured by chain, side view.
PDB entry 7m4h coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Watching right and wrong nucleotide insertion captures hidden polymerase fidelity checkpoints.
Jamsen JA, Shock DD, Wilson SH
OpenAccess logo Nat Commun 13 3193 (2022)
PMID: 35680862

Function and Biology Details

Reaction catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-121590 (preferred)
Entry contents:
1 distinct polypeptide molecule
3 distinct DNA molecules
Macromolecules (4 distinct):
DNA polymerase lambda Chain: A
Molecule details ›
Chain: A
Length: 329 amino acids
Theoretical weight: 36.7 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9UGP5 (Residues: 242-575; Coverage: 57%)
Gene name: POLL
Sequence domains:
DNA (5'-D(*CP*GP*GP*CP*AP*GP*TP*AP*CP*TP*G)-3') Chain: T
Molecule details ›
Chain: T
Length: 11 nucleotides
Theoretical weight: 3.37 KDa
Source organism: Homo sapiens
Expression system: Not provided
DNA (5'-D(*CP*AP*GP*TP*AP*CP*C)-3') Chain: P
Molecule details ›
Chain: P
Length: 7 nucleotides
Theoretical weight: 2.08 KDa
Source organism: Homo sapiens
Expression system: Not provided
DNA (5'-D(P*GP*CP*CP*G)-3') Chain: D
Molecule details ›
Chain: D
Length: 4 nucleotides
Theoretical weight: 1.19 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

5 bound ligands:
Ligand MN 3 x MN
Ligand NA 2 x NA
Ligand EDO 2 x EDO
Ligand PPV 1 x PPV
Ligand DCP 1 x DCP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P212121
Unit cell:
a: 55.814Å b: 62.299Å c: 142.057Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.194 0.192 0.228
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

1 review citation

New insights into DNA polymerase mechanisms provided by time-lapse crystallography.
Weaver et al. (2022)
2 other articles