3dbo

X-ray diffraction
1.76Å resolution

Crystal structure of a member of the VapBC family of toxin-antitoxin systems, VapBC-5, from Mycobacterium tuberculosis

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Putative antitoxin VapB5 Chain: A
Molecule details ›
Chain: A
Length: 93 amino acids
Theoretical weight: 10.18 KDa
Source organism: Mycobacterium tuberculosis H37Rv
Expression system: Escherichia coli
UniProt:
  • Canonical: P9WF19 (Residues: 1-86; Coverage: 100%)
Gene names: Rv0626, vapB5
Sequence domains: Antitoxin Phd_YefM, type II toxin-antitoxin system
Ribonuclease VapC5 Chain: B
Molecule details ›
Chain: B
Length: 150 amino acids
Theoretical weight: 16.24 KDa
Source organism: Mycobacterium tuberculosis H37Rv
Expression system: Escherichia coli
UniProt:
  • Canonical: P96917 (Residues: 2-135; Coverage: 99%)
Gene names: Rv0627, vapC5
Sequence domains: PIN domain
Structure domains: 5'-nuclease

Ligands and Environments

3 bound ligands:
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 8.2.2, APS BEAMLINE 24-ID-C
Spacegroup: P6522
Unit cell:
a: 64.83Å b: 64.83Å c: 164.65Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.214 0.213 0.247
Expression system: Escherichia coli