› 8hyk

X-ray diffraction
2.02Å resolution

CD-NTase EfCdnE in complex with intermediate pppU[2'-5']p

Released:
DOI: 10.2210/pdb8hyk/pdb
PDB entry 8hyk coloured by chain, front view.
PDB entry 8hyk coloured by chain, side view.
PDB entry 8hyk coloured by chain, top view.
Source organism: Enterococcus faecalis EnGen0062
Primary publication:
Crystal structure and functional implications of cyclic di-pyrimidine-synthesizing cGAS/DncV-like nucleotidyltransferases.
Yang CS, Ko TP, Chen CJ, Hou MH, Wang YC, Chen Y
OpenAccess logo Nat Commun 14 5078 (2023)
PMID: 37604815

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-535849 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Cyclic dipyrimidine nucleotide synthase CdnE Chain: A
Molecule details ›
Chain: A
Length: 307 amino acids
Theoretical weight: 35.75 KDa
Source organism: Enterococcus faecalis EnGen0062
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: P0DX98 (Residues: 1-299; Coverage: 100%)
Gene names: Q95_00773, cdnE

Ligands and Environments

2 bound ligands:
Ligand NE0 1 x NE0
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSRRC BEAMLINE TPS 07A
Spacegroup: P21
Unit cell:
a: 41.418Å b: 56.94Å c: 64.812Å
α: 90° β: 97.019° γ: 90°
R-values:
R R work R free
0.167 0.165 0.21
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'

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