› 4wya

X-ray diffraction
2.5Å resolution

Crystal structure of 7,8-diaminopelargonic acid synthase (BioA) from Mycobacterium tuberculosis, complexed with a fragment hit

Released:
DOI: 10.2210/pdb4wya/pdb
PDB entry 4wya coloured by chain, front view.
PDB entry 4wya coloured by chain, side view.
PDB entry 4wya coloured by chain, top view.
Source organism: Mycobacterium tuberculosis H37Rv
Primary publication:
Fragment-based exploration of binding site flexibility in Mycobacterium tuberculosis BioA.
Dai R, Geders TW, Liu F, Park SW, Schnappinger D, Aldrich CC, Finzel BC
J Med Chem 58 5208-17 (2015)
PMID: 26068403

Function and Biology Details

Reaction catalysed: 
S-adenosyl-L-methionine + 8-amino-7-oxononanoate = S-adenosyl-4-methylthio-2-oxobutanoate + 7,8-diaminononanoate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-162055 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Adenosylmethionine-8-amino-7-oxononanoate aminotransferase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 457 amino acids
Theoretical weight: 48.54 KDa
Source organism: Mycobacterium tuberculosis H37Rv
Expression system: Escherichia coli
UniProt:
  • Canonical: P9WQ81 (Residues: 1-437; Coverage: 100%)
Gene names: MTCY336.35c, Rv1568, bioA
Sequence domains: Aminotransferase class-III
Structure domains:

Ligands and Environments


Cofactor: Ligand PLP 4 x PLP
1 bound ligand:
Ligand 3VQ 2 x 3VQ
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU FR-E+ DW
Spacegroup: P21
Unit cell:
a: 62.647Å b: 65.672Å c: 201.336Å
α: 90° β: 90.29° γ: 90°
R-values:
R R work R free
0.228 0.224 0.306
Expression system: Escherichia coli

Quick links

Citations

3 review citations

Theory and applications of differential scanning fluorimetry in early-stage drug discovery.
Gao et al. (2020)
2 more

1 mention without citation

Fragment-based exploration of binding site flexibility in Mycobacterium tuberculosis BioA.
Dai et al. (2015)