› 7v1v

X-ray diffraction
1.96Å resolution

Difructose dianhydride I synthase/hydrolase (alphaFFase1) from Bifidobacterium dentium, ligand-free form

Released:
DOI: 10.2210/pdb7v1v/pdb
PDB entry 7v1v coloured by chain, front view.
PDB entry 7v1v coloured by chain, side view.
PDB entry 7v1v coloured by chain, top view.
Source organism: Bifidobacterium dentium
Primary publication:
Identification of difructose dianhydride I synthase/hydrolase from an oral bacterium establishes a novel glycoside hydrolase family.
Kashima T, Okumura K, Ishiwata A, Kaieda M, Terada T, Arakawa T, Yamada C, Shimizu K, Tanaka K, Kitaoka M, Ito Y, Fujita K, Fushinobu S
OpenAccess logo J Biol Chem 297 101324 (2021)
PMID: 34688653

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domain:

Structure analysis Details

Assembly composition:
homo hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-105782 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
DUF2961 domain-containing protein Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 460 amino acids
Theoretical weight: 53.05 KDa
Source organism: Bifidobacterium dentium
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A0A6L9SN29 (Residues: 1-452; Coverage: 100%)
Gene name: BDLFYP24_02130
Sequence domains: Protein of unknown function (DUF2961)

Ligands and Environments

3 bound ligands:
Ligand CA 6 x CA
Ligand MPD 2 x MPD
Ligand TAR 2 x TAR
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-5A
Spacegroup: P21
Unit cell:
a: 98.552Å b: 156.97Å c: 100.909Å
α: 90° β: 109.93° γ: 90°
R-values:
R R work R free
0.155 0.153 0.191
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

1 review citation

Computer Simulation to Rationalize "Rational" Engineering of Glycoside Hydrolases and Glycosyltransferases.
Coines et al. (2022)
3 other articles

3 mentions without citation

Cellular homologs of the double jelly-roll major capsid proteins clarify the origins of an ancient virus kingdom.
Krupovic et al. (2022)
2 more