› 6y3p

X-ray diffraction
2.3Å resolution

Crystal structure of the C-terminal domain from K. lactis Pby1, an ATP-grasp enzyme interacting with the mRNA decapping enzyme Dcp2

Released:
DOI: 10.2210/pdb6y3p/pdb
PDB entry 6y3p coloured by chain, front view.
PDB entry 6y3p coloured by chain, side view.
PDB entry 6y3p coloured by chain, top view.
Source organism: Kluyveromyces lactis NRRL Y-1140
Primary publication:
Pby1 is a direct partner of the Dcp2 decapping enzyme.
Charenton C, Gaudon-Plesse C, Back R, Ulryck N, Cosson L, Séraphin B, Graille M
OpenAccess logo Nucleic Acids Res 48 6353-6366 (2020)
PMID: 32396195

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-179472 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
ATP-grasp domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 402 amino acids
Theoretical weight: 47.01 KDa
Source organism: Kluyveromyces lactis NRRL Y-1140
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: Q6CVH5 (Residues: 321-717; Coverage: 55%)
Gene name: KLLA0_B12012g
Sequence domains: Tubulin-tyrosine ligase family

Ligands and Environments

1 bound ligand:
Ligand SO4 4 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SOLEIL BEAMLINE PROXIMA 1
Spacegroup: P3221
Unit cell:
a: 95.64Å b: 95.64Å c: 75.84Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.191 0.188 0.24
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'

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Citations

1 review citation

Eukaryotic mRNA Decapping Activation.
Vidya et al. (2022)
1 other article