› 7ygb

Electron Microscopy
2.62Å resolution

Cryo-EM structure of Tetrahymena ribozyme conformation 3 undergoing the second-step self-splicing

Released:
DOI: 10.2210/pdb7ygb/pdb
PDB entry 7ygb coloured by chain, front view.
PDB entry 7ygb coloured by chain, side view.
PDB entry 7ygb coloured by chain, top view.
Source organism: Tetrahymena
Primary publication:
Snapshots of the second-step self-splicing of Tetrahymena ribozyme revealed by cryo-EM.
Li S, Palo MZ, Zhang X, Pintilie G, Zhang K
Nat Commun 14 1294 (2023)
PMID: 36928031
Related structures: EMD-33814

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-197362 (preferred)
Entry contents:
3 distinct RNA molecules
Macromolecules (3 distinct):
RNA (5'-R(*CP*CP*CP*UP*CP*UP*UP*AP*AP*CP*C)-3') Chain: B
Molecule details ›
Chain: B
Length: 11 nucleotides
Theoretical weight: 3.38 KDa
Source organism: Tetrahymena
Expression system: Not provided
RNA (393-MER) Chain: N
Molecule details ›
Chain: N
Length: 393 nucleotides
Theoretical weight: 127.01 KDa
Source organism: Tetrahymena
Expression system: in vitro transcription vector pT7-Fluc(deltai)
Sequence domains: Group I catalytic intron
RNA (5'-R(*UP*CP*G)-3') Chain: A
Molecule details ›
Chain: A
Length: 3 nucleotides
Theoretical weight: 912 Da
Source organism: Tetrahymena
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand MG 54 x MG
1 modified residue:
Ligand SSU 1 x SSU

Experiments and Validation Details

Entry percentile scores
Resolution: 2.62Å
Relevant EMDB volumes: EMD-33814
Expression systems:
  • Not provided
  • in vitro transcription vector pT7-Fluc(deltai)

Quick links

Citations

1 review citation

Dynamic RNA synthetic biology: new principles, practices and potential.
Li et al. (2023)
2 other articles