› 3k3p

X-ray diffraction
2.23Å resolution

Crystal Structure of the Apo Form of D-Alanine:D-Alanine Ligase (DDl) from Streptococcus mutans

Released:
DOI: 10.2210/pdb3k3p/pdb
PDB entry 3k3p coloured by chain, front view.
PDB entry 3k3p coloured by chain, side view.
PDB entry 3k3p coloured by chain, top view.
Source organism: Streptococcus mutans
Primary publication:
Crystal structure of the Apo form of D-Alanine:D-Alanine ligase (DDl) from Streptococcus mutans.
Lu Y, Xu H, Zhao X
Protein Pept Lett 17 1053-7 (2010)
PMID: 20522004

Function and Biology Details

Reaction catalysed: 
ATP + 2 D-alanine = ADP + phosphate + D-alanyl-D-alanine
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-161180 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
D-alanine--D-alanine ligase Chains: A, B
Molecule details ›
Chains: A, B
Length: 383 amino acids
Theoretical weight: 42.42 KDa
Source organism: Streptococcus mutans
Expression system: Escherichia coli
UniProt:
  • Canonical: P95803 (Residues: 1-349; Coverage: 100%)
Gene names: SMU_599, ddl
Sequence domains:
Structure domains:

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: OXFORD DIFFRACTION ENHANCE ULTRA
Spacegroup: P32
Unit cell:
a: 79.502Å b: 79.502Å c: 109.4Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.199 0.196 0.248
Expression system: Escherichia coli

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Citations

1 mention without citation

Burkholderia pseudomallei d-alanine-d-alanine ligase; detailed characterisation and assessment of a potential antibiotic drug target.
Díaz-Sáez et al. (2019)