› 3vm5

X-ray diffraction
2.85Å resolution

Recombinant medaka fish alpha-amylase expressed in yeast Pichia pastoris

Released:
DOI: 10.2210/pdb3vm5/pdb
PDB entry 3vm5 coloured by chain, front view.
PDB entry 3vm5 coloured by chain, side view.
PDB entry 3vm5 coloured by chain, top view.
Source organism: Oryzias latipes
Primary publication:
Structural and functional characterization of recombinant medaka fish alpha-amylase expressed in yeast Pichia pastoris.
Mizutani K, Toyoda M, Otake Y, Yoshioka S, Takahashi N, Mikami B
Biochim Biophys Acta 1824 954-62 (2012)
PMID: 22613096

Function and Biology Details

Reaction catalysed: 
Endohydrolysis of (1->4)-alpha-D-glucosidic linkages in polysaccharides containing three or more (1->4)-alpha-linked D-glucose units
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-124766 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Alpha-amylase Chain: A
Molecule details ›
Chain: A
Length: 505 amino acids
Theoretical weight: 56.71 KDa
Source organism: Oryzias latipes
Expression system: Komagataella pastoris
UniProt:
  • Canonical: H2N0D4 (Residues: 16-512; Coverage: 100%)
Sequence domains:
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand CA 1 x CA
Ligand CL 1 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P3221
Unit cell:
a: 83.045Å b: 83.045Å c: 174.228Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.177 0.177 0.248
Expression system: Komagataella pastoris

Quick links

Citations

3 review citations

α-Amylase: an enzyme specificity found in various families of glycoside hydrolases.
Janeček et al. (2014)
2 more