› 2d0g

X-ray diffraction
2.6Å resolution

Crystal Structure of Thermoactinomyces vulgaris R-47 Alpha-Amylase 1 (TVAI) Mutant D356N/E396Q complexed with P5, a pullulan model oligosaccharide

Released:
DOI: 10.2210/pdb2d0g/pdb
PDB entry 2d0g coloured by chain, front view.
PDB entry 2d0g coloured by chain, side view.
PDB entry 2d0g coloured by chain, top view.
Source organism: Thermoactinomyces vulgaris
Primary publication:
Complexes of Thermoactinomyces vulgaris R-47 alpha-amylase 1 and pullulan model oligossacharides provide new insight into the mechanism for recognizing substrates with alpha-(1,6) glycosidic linkages.
Abe A, Yoshida H, Tonozuka T, Sakano Y, Kamitori S
FEBS J 272 6145-53 (2005)
PMID: 16302977

Function and Biology Details

Reaction catalysed: 
Hydrolysis of pullulan to panose (6-alpha-D-glucosylmaltose)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-178752 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (4 distinct):
Neopullulanase 1 Chain: A
Molecule details ›
Chain: A
Length: 637 amino acids
Theoretical weight: 71.11 KDa
Source organism: Thermoactinomyces vulgaris
Expression system: Escherichia coli
UniProt:
  • Canonical: Q60053 (Residues: 30-666; Coverage: 100%)
Gene name: tvaI
Sequence domains:
Structure domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: GLC, BGC
Carbohydrate polymer
Carbohydrate polymer : NEW Components: GLC, BGC
Carbohydrate polymer
Carbohydrate polymer : NEW Components: BGC
Carbohydrate polymer
4 bound ligands:
Ligand GLC 1 x GLC
Ligand BGC 1 x BGC
Ligand CA 3 x CA
Ligand MPD 1 x MPD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-18B
Spacegroup: C2
Unit cell:
a: 120.885Å b: 50.698Å c: 108.007Å
α: 90° β: 103.43° γ: 90°
R-values:
R R work R free
0.154 0.15 0.19
Expression system: Escherichia coli

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Citations

3 review citations

Occurrence and functional significance of secondary carbohydrate binding sites in glycoside hydrolases.
Cuyvers et al. (2012)
2 more