› 4x4r

X-ray diffraction
3.2Å resolution

Crystal structure of the A.fulgidus CCA-adding enzyme in complex with a G70A arginyl-tRNA minihelix ending in CCACC and AMPcPP

Released:
DOI: 10.2210/pdb4x4r/pdb
PDB 4x4r coloured by chain and viewed from the front.
PDB 4x4r coloured by chain and viewed from the side.
PDB 4x4r coloured by chain and viewed from the top.
Source organisms:
Primary publication:
On-enzyme refolding permits small RNA and tRNA surveillance by the CCA-adding enzyme.
Kuhn CD, Wilusz JE, Zheng Y, Beal PA, Joshua-Tor L
Cell 160 644-658 (2015)
PMID: 25640237

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 analysis Details

Assemblies composition:
hetero dimer
hetero trimer (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct RNA molecules
Macromolecules (3 distinct):
CCA-adding enzyme Chains: A, C
Molecule details ›
Chains: A, C
Length: 457 amino acids
Theoretical weight: 53.67 KDa
Source organism: Archaeoglobus fulgidus DSM 4304
Expression system: Escherichia coli
UniProt:
  • Canonical: O28126 (Residues: 1-437; Coverage: 100%)
Gene names: AF_2156, cca
Sequence domains:
Structure domains:
G70A tRNA minihelix ending in CCACC Chains: B, D
Molecule details ›
Chains: B, D
Length: 37 nucleotides
Theoretical weight: 11.87 KDa
Source organism: Homo sapiens
Expression system: Not provided
RNA (5'-D(*CP*G)-3') Chain: H
Molecule details ›
Chain: H
Length: 2 nucleotides
Theoretical weight: 605 Da
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

6 bound ligands:
Ligand APC 2 x APC
Ligand MG 2 x MG
Ligand MES 1 x MES
Ligand GOL 3 x GOL
Ligand TAR 1 x TAR
Ligand PEG 1 x PEG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X25
Spacegroup: P21212
Unit cell:
a: 111.1Å b: 217.368Å c: 58.562Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.212 0.209 0.266
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

15 review citations

RNA Metabolism Guided by RNA Modifications: The Role of SMUG1 in rRNA Quality Control.
Lirussi et al. (2021)
14 more

2 mentions without citation

On-enzyme refolding permits small RNA and tRNA surveillance by the CCA-adding enzyme.
Kuhn et al. (2015)
1 more