› 363d

X-ray diffraction
2Å resolution

High-resolution crystal structure of a fully modified N3'-> P5' phosphoramidate DNA dodecamer duplex

Released:
DOI: 10.2210/pdb363d/pdb
PDB entry 363d coloured by chain, front view.
PDB entry 363d coloured by chain, side view.
PDB entry 363d coloured by chain, top view.
Source organism: Unidentified
Primary publication:
Consequences of Replacing the DNA 3'-Oxygen by an Amino Group: High-Resolution Crystal Structure of a Fully Modified N3'--> P5' Phosphoramidate DNA Dodecamer Duplex
Tereshko V, Gryaznov S, Egli M
J. Am. Chem. Soc. 120 269-283 (1998)

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-116026 (preferred)
Entry contents:
1 distinct DNA molecule
Macromolecule:
5'-D(*(C42)P*(G38)P*(C42)P*(G38)P*(A43)P*(A43)P*(NYM)P*(NYM)P*(C42)P*(G38)P*(C42)P*DG)-3' Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 12 nucleotides
Theoretical weight: 3.65 KDa
Source organism: Unidentified
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand NH4 24 x NH4
Ligand CL 12 x CL
3 modified residues:
Ligand C42 24 x C42
Ligand G38 18 x G38
Ligand A43 12 x A43

Experiments and Validation Details

Entry percentile scores
Spacegroup: R32
Unit cell:
a: 40.15Å b: 40.15Å c: 304.21Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.2 0.192 0.247
Expression system: Not provided

Quick links

Citations

1 mention without citation

DNA polymerase activity on synthetic N3'→P5' phosphoramidate DNA templates.
Lelyveld et al. (2019)