› 5e51

X-ray diffraction
2.25Å resolution

Crystal structure of Mycobacterium tuberculosis L,D-transpeptidase 1 with Faropenem adduct

Released:
DOI: 10.2210/pdb5e51/pdb
PDB entry 5e51 coloured by chain, front view.
PDB entry 5e51 coloured by chain, side view.
PDB entry 5e51 coloured by chain, top view.
Source organism: Mycobacterium tuberculosis CDC1551
Primary publication:
Non-classical transpeptidases yield insight into new antibacterials.
Kumar P, Kaushik A, Lloyd EP, Li SG, Mattoo R, Ammerman NC, Bell DT, Perryman AL, Zandi TA, Ekins S, Ginell SL, Townsend CA, Freundlich JS, Lamichhane G
OpenAccess logo Nat Chem Biol 13 54-61 (2017)
PMID: 27820797

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-129459 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
L,D-transpeptidase 1 Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 223 amino acids
Theoretical weight: 23.97 KDa
Source organism: Mycobacterium tuberculosis CDC1551
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O53638 (Residues: 32-251; Coverage: 99%)
Gene names: P425_00122, RVBD_0116c, Rv0116c, ldtA
Sequence domains:
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand 5KO 2 x 5KO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P31
Unit cell:
a: 58.379Å b: 58.379Å c: 257.397Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.259 0.258 0.296
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

9 review citations

Cell Wall Hydrolases in Bacteria: Insight on the Diversity of Cell Wall Amidases, Glycosidases and Peptidases Toward Peptidoglycan.
Vermassen et al. (2019)
8 more

1 mention without citation

Non-classical transpeptidases yield insight into new antibacterials.
Kumar et al. (2017)