› 5e5l

X-ray diffraction
1.89Å resolution

Crystal structure of Mycobacterium tuberculosis L,D-transpeptidase 1 at 1.89 Angstrom

Released:
DOI: 10.2210/pdb5e5l/pdb
PDB entry 5e5l coloured by chain, front view.
PDB entry 5e5l coloured by chain, side view.
PDB entry 5e5l coloured by chain, top view.
Source organism: Mycobacterium tuberculosis H37Rv
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 H37Rv
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

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P31
Unit cell:
a: 57.731Å b: 57.731Å c: 256.601Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.214 0.208 0.257
Expression system: Escherichia coli BL21(DE3)

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Citations

10 review citations

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

2 mentions without citation

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