› 1t8h

X-ray diffraction
1.8Å resolution

1.8 A CRYSTAL STRUCTURE OF AN UNCHARACTERIZED B. STEAROTHERMOPHILUS PROTEIN

Released:
DOI: 10.2210/pdb1t8h/pdb
PDB entry 1t8h coloured by chain, front view.
PDB entry 1t8h coloured by chain, side view.
PDB entry 1t8h coloured by chain, top view.
Source organism: Geobacillus stearothermophilus
Entry authors: Minasov G, Shuvalova L, Mondragon A, Taneja B, Moy SF, Collart FR, Anderson WF, Midwest Center for Structural Genomics (MCSG)

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:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-160837 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Purine nucleoside phosphorylase YlmD Chain: A
Molecule details ›
Chain: A
Length: 277 amino acids
Theoretical weight: 30.15 KDa
Source organism: Geobacillus stearothermophilus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P84138 (Residues: 1-274; Coverage: 100%)
Gene name: ylmD
Sequence domains: Multi-copper polyphenol oxidoreductase laccase
Structure domains: CNF1/YfiH-like putative cysteine hydrolases

Ligands and Environments

2 bound ligands:
Ligand ZN 1 x ZN
Ligand BME 2 x BME
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 5ID-B
Spacegroup: P212121
Unit cell:
a: 41.97Å b: 48.879Å c: 135.041Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.18 0.18 0.21
Expression system: Escherichia coli BL21(DE3)

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