› 1ybf

X-ray diffraction
2.9Å resolution

Crystal structure of AMP nucleosidase from Bacteroides thetaiotaomicron VPI-5482

Released:
DOI: 10.2210/pdb1ybf/pdb
PDB entry 1ybf coloured by chain, front view.
PDB entry 1ybf coloured by chain, side view.
PDB entry 1ybf coloured by chain, top view.
Source organism: Bacteroides thetaiotaomicron VPI-5482
Entry authors: Krishnamurthy NR, Swaminathan S, Burley SK, New York SGX Research Center for Structural Genomics (NYSGXRC)

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assemblies composition:
homo trimer (preferred)
homo hexamer
Assembly name:
PDBe Complex ID:
PDB-CPX-181757 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Nucleoside phosphorylase domain-containing protein Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 268 amino acids
Theoretical weight: 30.65 KDa
Source organism: Bacteroides thetaiotaomicron VPI-5482
Expression system: Escherichia coli
UniProt:
  • Canonical: Q7MVU1 (Residues: 1-258; Coverage: 100%)
Gene name: PG_0948
Sequence domains: Phosphorylase superfamily
Structure domains: Nucleoside phosphorylase domain

Ligands and Environments

No bound ligands
1 modified residue:
Ligand MSE 24 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: P4122
Unit cell:
a: 108.12Å b: 108.12Å c: 160.81Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.228 0.228 0.264
Expression system: Escherichia coli

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