› 8swq

X-ray diffraction
1.98Å resolution

Structure of K. lactis PNP bound to transition state analog DADMe-IMMUCILLIN H and sulfate

Released:
DOI: 10.2210/pdb8swq/pdb
PDB entry 8swq coloured by chain, front view.
PDB entry 8swq coloured by chain, side view.
PDB entry 8swq coloured by chain, top view.
Source organism: Kluyveromyces lactis NRRL Y-1140
Primary publication:
Phosphate Binding in PNP Alters Transition-State Analogue Affinity and Subunit Cooperativity.
Minnow YVT, Schramm VL, Almo SC, Ghosh A
Biochemistry (2023)
PMID: 37812583

Function and Biology Details

Reaction catalysed: 
Purine deoxynucleoside + phosphate = purine + 2'-deoxy-alpha-D-ribose 1-phosphate
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
homo trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-179463 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Purine nucleoside phosphorylase Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 307 amino acids
Theoretical weight: 33.73 KDa
Source organism: Kluyveromyces lactis NRRL Y-1140
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q6CSZ6 (Residues: 1-306; Coverage: 100%)
Gene name: KLLA0_C16621g
Sequence domains: Phosphorylase superfamily

Ligands and Environments

3 bound ligands:
Ligand DIH 4 x DIH
Ligand SO4 6 x SO4
Ligand GOL 4 x GOL
1 modified residue:
Ligand MSE 30 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 31-ID
Spacegroup: P21
Unit cell:
a: 89.963Å b: 110.788Å c: 98.043Å
α: 90° β: 108.95° γ: 90°
R-values:
R R work R free
0.165 0.163 0.197
Expression system: Escherichia coli BL21(DE3)

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