› 3w7u

X-ray diffraction
1.99Å resolution

Escherichia coli K12 YgjK complexed with galactose

Released:
DOI: 10.2210/pdb3w7u/pdb
Model geometry
Fit model/data
PDB entry 3w7u coloured by chain, front view.
PDB entry 3w7u coloured by chain, side view.
PDB entry 3w7u coloured by chain, top view.
Source organism: Escherichia coli K-12
Primary publication:
Structural insights into the substrate specificity and function of Escherichia coli K12 YgjK, a glucosidase belonging to the glycoside hydrolase family 63.
Kurakata Y, Uechi A, Yoshida H, Kamitori S, Sakano Y, Nishikawa A, Tonozuka T
J Mol Biol 381 116-28 (2008)
PMID: 18586271

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-154828 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Glucosidase YgjK Chains: A, B
Molecule details ›
Chains: A, B
Length: 760 amino acids
Theoretical weight: 86 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli
UniProt:
  • Canonical: P42592 (Residues: 24-783; Coverage: 100%)
Gene names: JW3051, b3080, ygjK
Sequence domains:
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand CA 2 x CA
Ligand GLA 2 x GLA
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: PHOTON FACTORY BEAMLINE AR-NW12A
Spacegroup: P21
Unit cell:
a: 62.07Å b: 140.02Å c: 86.26Å
α: 90° β: 97.66° γ: 90°
R-values:
R R work R free
0.193 0.191 0.236
Expression system: Escherichia coli

Quick links

Citations

5 review citations

Calcium binding proteins and calcium signaling in prokaryotes.
Domínguez et al. (2015)
4 more

2 mentions without citation

Benchmark Sets for Binding Hot Spot Identification in Fragment-Based Ligand Discovery.
Wakefield et al. (2020)
1 more