› 4fyi

X-ray diffraction
1.96Å resolution

Crystal structure of rcl with 6-cyclopentyl-AMP

Released:
DOI: 10.2210/pdb4fyi/pdb
PDB entry 4fyi coloured by chain, front view.
PDB entry 4fyi coloured by chain, side view.
PDB entry 4fyi coloured by chain, top view.
Source organism: Rattus norvegicus
Primary publication:
Structure of the oncoprotein Rcl bound to three nucleotide analogues.
Padilla A, Amiable C, Pochet S, Kaminski PA, Labesse G
Acta Crystallogr D Biol Crystallogr 69 247-55 (2013)
PMID: 23385460

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-128714 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
5-hydroxymethyl-dUMP N-hydrolase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 152 amino acids
Theoretical weight: 17.17 KDa
Source organism: Rattus norvegicus
Expression system: Escherichia coli
UniProt:
  • Canonical: O35820 (Residues: 11-151; Coverage: 87%)
Gene names: Dnph1, Rcl
Sequence domains: Nucleoside 2-deoxyribosyltransferase
Structure domains: Rossmann fold

Ligands and Environments

1 bound ligand:
Ligand 6C6 4 x 6C6
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-4
Spacegroup: P21212
Unit cell:
a: 91.567Å b: 118.873Å c: 57.537Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.181 0.179 0.216
Expression system: Escherichia coli

Quick links

Citations

1 review citation

The druggability of intracellular nucleotide-degrading enzymes.
Rampazzo et al. (2016)
3 other articles

2 mentions without citation

Reversal of the substrate specificity of CMP N-glycosidase to dCMP.
Sikowitz et al. (2013)
1 more