› 6e6i

X-ray diffraction
2.4Å resolution

Crystal structure of 4-methyl HOPDA bound to LigY from Sphingobium sp. strain SYK-6

Released:
DOI: 10.2210/pdb6e6i/pdb
PDB entry 6e6i coloured by chain, front view.
PDB entry 6e6i coloured by chain, side view.
PDB entry 6e6i coloured by chain, top view.
Source organism: Sphingobium sp. SYK-6
Primary publication:
Metal- and Serine-Dependent Meta-Cleavage Product Hydrolases Utilize Similar Nucleophile-Activation Strategies
Kuatsjah E, Chan ACK, Hurst TE, Snieckus V, Murphy MEP, Eltis LD
ACS Catalysis 8 11622-11632 (2018)

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-124247 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Amidohydrolase-related domain-containing protein Chains: A, B, C, D, E, F, G, H, I
Molecule details ›
Chains: A, B, C, D, E, F, G, H, I
Length: 332 amino acids
Theoretical weight: 37.32 KDa
Source organism: Sphingobium sp. SYK-6
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: G2IN02 (Residues: 1-332; Coverage: 100%)
Gene names: SLG_07750, ligY
Sequence domains: Amidohydrolase

Ligands and Environments

2 bound ligands:
Ligand ZN 9 x ZN
Ligand HVS 9 x HVS
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL9-2
Spacegroup: C2221
Unit cell:
a: 180.645Å b: 195.099Å c: 179.917Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.183 0.183 0.219
Expression system: Escherichia coli BL21(DE3)

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