› 4abt

X-ray diffraction
2.22Å resolution

Crystal structure of Type IIF restriction endonuclease NgoMIV with cognate uncleaved DNA

Released:
DOI: 10.2210/pdb4abt/pdb
PDB entry 4abt coloured by chain, front view.
PDB entry 4abt coloured by chain, side view.
PDB entry 4abt coloured by chain, top view.
Source organism: Neisseria gonorrhoeae
Entry authors: Manakova EN, Grazulis S, Zaremba M, Tamulaitiene G, Golovenko D, Siksnys V

Function and Biology Details

Reaction catalysed: 
Endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero octamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-117212 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
Type II restriction enzyme NgoMIV Chains: A, B
Molecule details ›
Chains: A, B
Length: 286 amino acids
Theoretical weight: 31.81 KDa
Source organism: Neisseria gonorrhoeae
Expression system: Escherichia coli
UniProt:
  • Canonical: P31032 (Residues: 3-286; Coverage: 99%)
Gene name: ngoMIVR
Sequence domains: NgoMIV restriction enzyme
Structure domains: Type-2 restriction enzyme NgoMIV
5'-D(*TP*GP*CP*GP*CP*CP*GP*GP*CP*GP*CP)-3' Chains: E, G
Molecule details ›
Chains: E, G
Length: 11 nucleotides
Theoretical weight: 3.35 KDa
Source organism: Neisseria gonorrhoeae
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand CA 3 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: EMBL/DESY, HAMBURG BEAMLINE X11
Spacegroup: P21212
Unit cell:
a: 68.899Å b: 90.081Å c: 92.711Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.185 0.18 0.235
Expression systems:
  • Escherichia coli
  • Not provided

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