› 5z3a

X-ray diffraction
1.4Å resolution

Glycosidase Wild Type

Released:
DOI: 10.2210/pdb5z3a/pdb
PDB entry 5z3a coloured by chain, front view.
PDB entry 5z3a coloured by chain, side view.
PDB entry 5z3a coloured by chain, top view.
Source organism: Kribbella flavida DSM 17836
Primary publication:
Structural insights reveal the second base catalyst of isomaltose glucohydrolase.
Tagami T, Chen M, Furunaga Y, Kikuchi A, Sadahiro J, Lang W, Okuyama M, Tanaka Y, Iwasaki T, Yao M, Kimura A
FEBS J 289 1118-1134 (2022)
PMID: 34665923

Function and Biology Details

Reaction catalysed: 
Isomaltose + H(2)O = beta-D-glucose + D-glucose
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-112382 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Isomaltose glucohydrolase Chain: A
Molecule details ›
Chain: A
Length: 405 amino acids
Theoretical weight: 44.03 KDa
Source organism: Kribbella flavida DSM 17836
Expression system: Escherichia coli
UniProt:
  • Canonical: D2PPM8 (Residues: 1-385; Coverage: 100%)
Gene name: Kfla_1896
Sequence domains: Glycosyl hydrolases family 15

Ligands and Environments

2 bound ligands:
Ligand GOL 4 x GOL
Ligand CIT 1 x CIT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL38B1
Spacegroup: P4212
Unit cell:
a: 104.743Å b: 104.743Å c: 89.486Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.117 0.116 0.14
Expression system: Escherichia coli

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