› 2dvi

X-ray diffraction
2.61Å resolution

Complex structure of CCA-adding enzyme, mini-DCC and CTP

Released:
DOI: 10.2210/pdb2dvi/pdb
PDB entry 2dvi coloured by chain, front view.
PDB entry 2dvi coloured by chain, side view.
PDB entry 2dvi coloured by chain, top view.
Source organism: Archaeoglobus fulgidus
Primary publication:
Complete crystallographic analysis of the dynamics of CCA sequence addition.
Tomita K, Ishitani R, Fukai S, Nureki O
Nature 443 956-60 (2006)
PMID: 17051158

Function and Biology Details

Reaction catalysed: 
(1a) a tRNA precursor + CTP = a tRNA with a 3' cytidine end + diphosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-127953 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
CCA-adding enzyme Chain: A
Molecule details ›
Chain: A
Length: 437 amino acids
Theoretical weight: 51.47 KDa
Source organism: Archaeoglobus fulgidus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O28126 (Residues: 1-437; Coverage: 100%)
Gene names: AF_2156, cca
Sequence domains:
Structure domains:
tRNA (34-MER) Chain: B
Molecule details ›
Chain: B
Length: 34 nucleotides
Theoretical weight: 10.9 KDa
Source organism: Archaeoglobus fulgidus
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand SO4 1 x SO4
Ligand MG 1 x MG
Ligand CTP 1 x CTP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P43212
Unit cell:
a: 58.004Å b: 58.004Å c: 431.498Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.207 0.207 0.252
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

15 review citations

RNA-specific ribonucleotidyl transferases.
Martin et al. (2007)
14 more