PDBe 2zdh

X-ray diffraction
1.9Å resolution

Crystal structure of D-Alanine:D-Alanine Ligase with ADP and D-Alanine from Thermus thermophius HB8

Released:
Source organism: Thermus thermophilus HB8
Entry authors: Kitamuta Y, Yokoyama S, Kuramitsu S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Function and Biology Details

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
D-alanine--D-alanine ligase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 319 amino acids
Theoretical weight: 34.7 KDa
Source organism: Thermus thermophilus HB8
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q5SHZ3 (Residues: 1-319; Coverage: 100%)
Gene names: TTHA1587, ddl
Sequence domains:
Structure domains:

Ligands and Environments

3 bound ligands:

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL26B2
Spacegroup: P212121
Unit cell:
a: 68.946Å b: 105.394Å c: 199.748Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.207 0.207 0.239
Expression system: Escherichia coli BL21(DE3)