› 5qp7

X-ray diffraction
1.88Å resolution

PanDDA analysis group deposition -- Crystal Structure of DCP2 (NUDT20) in complex with PB1230873739

Released:
DOI: 10.2210/pdb5qp7/pdb
PDB entry 5qp7 coloured by chain, front view.
PDB entry 5qp7 coloured by chain, side view.
PDB entry 5qp7 coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Nelson ER, Velupillai S, Talon R, Collins PM, Krojer T, Wang D, Brandao-Neto J, Douangamath A, Burgess-Brown N, Arrowsmith CH, Bountra C, Huber K, von Delft F

Function and Biology Details

Reaction catalysed: 
5'-(N(7)-methylguanosine 5'-triphospho)-[mRNA] + H(2)O = N(7)-methylguanosine 5'-diphosphate + 5'-phospho-[mRNA]
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-184843 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
m7GpppN-mRNA hydrolase Chain: A
Molecule details ›
Chain: A
Length: 167 amino acids
Theoretical weight: 19.07 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8IU60 (Residues: 95-260; Coverage: 40%)
Gene names: DCP2, NUDT20
Sequence domains: NUDIX domain
Structure domains: Nucleoside Triphosphate Pyrophosphohydrolase

Ligands and Environments

4 bound ligands:
Ligand EDO 2 x EDO
Ligand DMS 1 x DMS
Ligand ACT 2 x ACT
Ligand LJJ 1 x LJJ
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04-1
Spacegroup: P212121
Unit cell:
a: 48.365Å b: 60.452Å c: 65.353Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.2 0.197 0.26
Expression system: Escherichia coli

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