› 2dvi

X-ray diffraction
2.61Å resolution

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

Released:
DOI: 10.2210/pdb2dvi/pdb
PDB 2dvi coloured by chain and viewed from the front.
PDB 2dvi coloured by chain and viewed from the side.
PDB 2dvi coloured by chain and viewed from the top.
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)
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

13 review citations

Function and Regulation of Human Terminal Uridylyltransferases.
Yashiro et al. (2018)
12 more