› 1ztt

X-ray diffraction
1.85Å resolution

Netropsin bound to d(CTTAATTCGAATTAAG) in complex with MMLV RT catalytic fragment

Released:
DOI: 10.2210/pdb1ztt/pdb
PDB entry 1ztt coloured by chain, front view.
PDB entry 1ztt coloured by chain, side view.
PDB entry 1ztt coloured by chain, top view.
Source organism: Moloney murine leukemia virus
Primary publication:
A host-guest approach for determining drug-DNA interactions: an example using netropsin.
Goodwin KD, Long EC, Georgiadis MM
Nucleic Acids Res 33 4106-16 (2005)
PMID: 16049022

Function and Biology Details

Reactions catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Endonucleolytic cleavage to 5'-phosphomonoester.
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-114960 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Reverse transcriptase/ribonuclease H Chain: A
Molecule details ›
Chain: A
Length: 255 amino acids
Theoretical weight: 28.93 KDa
Source organism: Moloney murine leukemia virus
Expression system: Escherichia coli
UniProt:
  • Canonical: P03355 (Residues: 683-937; Coverage: 15%)
Gene name: gag-pol
Sequence domains: Reverse transcriptase (RNA-dependent DNA polymerase)
Structure domains:
5'-D(*CP*TP*TP*AP*AP*TP*TP*C)-3' Chain: B
Molecule details ›
Chain: B
Length: 8 nucleotides
Theoretical weight: 2.38 KDa
Source organism: Moloney murine leukemia virus
Expression system: Not provided
5'-D(P*GP*AP*AP*TP*TP*AP*AP*G)-3' Chain: G
Molecule details ›
Chain: G
Length: 8 nucleotides
Theoretical weight: 2.47 KDa
Source organism: Moloney murine leukemia virus
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand NT 1 x NT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RUH2R
Spacegroup: P21212
Unit cell:
a: 54.569Å b: 145.611Å c: 46.811Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.23 0.22 0.246
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

2 review citations

The chemistry and biology of organic guanidine derivatives.
Berlinck et al. (2008)
1 more

4 mentions without citation

Structure-based DNA-targeting strategies with small molecule ligands for drug discovery.
Sheng et al. (2013)
3 more