› 4emn

X-ray diffraction
1.17Å resolution

Crystal structure of RpfB catalytic domain in complex with benzamidine

Released:
DOI: 10.2210/pdb4emn/pdb
PDB entry 4emn coloured by chain, front view.
PDB entry 4emn coloured by chain, side view.
PDB entry 4emn coloured by chain, top view.
Source organism: Mycobacterium tuberculosis
Primary publication:
Molecular determinants of inactivation of the resuscitation promoting factor B from Mycobacterium tuberculosis.
Ruggiero A, Marchant J, Squeglia F, Makarov V, De Simone A, Berisio R
J Biomol Struct Dyn 31 195-205 (2013)
PMID: 22831279

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-161450 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Resuscitation-promoting factor RpfB Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 81 amino acids
Theoretical weight: 8.59 KDa
Source organism: Mycobacterium tuberculosis
Expression system: Escherichia coli
UniProt:
  • Canonical: P9WG29 (Residues: 282-362; Coverage: 24%)
Gene names: MTC1237.26, Rv1009, rpfB
Sequence domains: Transglycosylase-like domain
Structure domains: Lysozyme

Ligands and Environments

2 bound ligands:
Ligand BEN 6 x BEN
Ligand SO4 2 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ELETTRA BEAMLINE 5.2R
Spacegroup: P21
Unit cell:
a: 42.545Å b: 50.733Å c: 66.421Å
α: 90° β: 104.09° γ: 90°
R-values:
R R work R free
0.15 0.127 0.188
Expression system: Escherichia coli

Quick links

Citations

3 review citations

Chemistry of Peptidoglycan in Mycobacterium tuberculosis Life Cycle: An off-the-wall Balance of Synthesis and Degradation.
Squeglia et al. (2018)
2 more

4 mentions without citation

The Cell Wall Hydrolytic NlpC/P60 Endopeptidases in Mycobacterial Cytokinesis: A Structural Perspective.
Squeglia et al. (2019)
3 more