4rd5

X-ray diffraction
2.7Å resolution

Crystal structure of R.NgoAVII restriction endonuclease B3 domain with cognate DNA

Released:

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Restriction endonuclease NgoFVII Chains: A, B
Molecule details ›
Chains: A, B
Length: 178 amino acids
Theoretical weight: 20.67 KDa
Source organism: Neisseria gonorrhoeae FA 1090
Expression system: Escherichia coli
UniProt:
  • Canonical: Q5F9M9 (Residues: 179-345; Coverage: 48%)
Gene name: NGO_0364
DNA (5'-D(*CP*CP*CP*TP*AP*AP*GP*CP*GP*GP*CP*AP*AP*TP*CP*C)-3') Chains: C, E
Molecule details ›
Chains: C, E
Length: 16 nucleotides
Theoretical weight: 4.83 KDa
Source organism: Neisseria gonorrhoeae FA 1090
Expression system: Not provided
DNA (5'-D(*GP*GP*GP*AP*TP*TP*GP*CP*CP*GP*CP*TP*TP*AP*GP*G)-3') Chains: D, F
Molecule details ›
Chains: D, F
Length: 16 nucleotides
Theoretical weight: 4.97 KDa
Source organism: Neisseria gonorrhoeae FA 1090
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1)
Spacegroup: P41212
Unit cell:
a: 88.414Å b: 88.414Å c: 152.437Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.218 0.214 0.25
Expression systems:
  • Escherichia coli
  • Not provided