› 1u05

X-ray diffraction
2.5Å resolution

Crystal structure of protein yfiH from Shigella flexneri, Pfam DUF152

Released:
DOI: 10.2210/pdb1u05/pdb
PDB entry 1u05 coloured by chain, front view.
PDB entry 1u05 coloured by chain, side view.
PDB entry 1u05 coloured by chain, top view.
Source organism: Shigella flexneri
Entry authors: Seetharaman J, Swaminathan S, Burley SK, New York SGX Research Center for Structural Genomics (NYSGXRC)

Function and Biology Details

Reactions catalysed: 
Purine deoxynucleoside + phosphate = purine + 2'-deoxy-alpha-D-ribose 1-phosphate
S-methyl-5'-thioadenosine + phosphate = adenine + S-methyl-5-thio-alpha-D-ribose 1-phosphate
2'-deoxyadenosine + H(2)O = 2'-deoxyinosine + NH(3)
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-104747 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Purine nucleoside phosphorylase YfiH Chains: A, B
Molecule details ›
Chains: A, B
Length: 243 amino acids
Theoretical weight: 26.41 KDa
Source organism: Shigella flexneri
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A384KG77 (Residues: 1-243; Coverage: 100%)
Gene names: SF2654, yfiH
Sequence domains: Multi-copper polyphenol oxidoreductase laccase
Structure domains: CNF1/YfiH-like putative cysteine hydrolases

Ligands and Environments

1 bound ligand:
Ligand ZN 2 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X12C
Spacegroup: P1
Unit cell:
a: 43.683Å b: 50.465Å c: 55.265Å
α: 90.25° β: 96.51° γ: 90.29°
R-values:
R R work R free
0.217 0.217 0.283
Expression system: Escherichia coli

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