› 5eao

X-ray diffraction
2.99Å resolution

Two active site divalent ion in the crystal structure of the hammerhead ribozyme bound to a transition state analog-Mg2+

Released:
DOI: 10.2210/pdb5eao/pdb
PDB entry 5eao coloured by chain, front view.
PDB entry 5eao coloured by chain, side view.
PDB entry 5eao coloured by chain, top view.
Source organism: synthetic construct
Primary publication:
Two Active Site Divalent Ions in the Crystal Structure of the Hammerhead Ribozyme Bound to a Transition State Analogue.
Mir A, Golden BL
Biochemistry 55 633-6 (2016)
PMID: 26551631

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-196922 (preferred)
Entry contents:
2 distinct RNA molecules
Macromolecules (2 distinct):
RNA (48-MER) Chain: A
Molecule details ›
Chain: A
Length: 48 nucleotides
Theoretical weight: 15.5 KDa
Source organism: synthetic construct
Expression system: Escherichia coli
RNA (5'-R(*GP*GP*GP*CP*GP*U*(CVC)*UP*GP*GP*GP*CP*AP*GP*UP*AP*CP*CP*CP*A)-3') Chain: B
Molecule details ›
Chain: B
Length: 20 nucleotides
Theoretical weight: 6.54 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand MG 8 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-F
Spacegroup: C2221
Unit cell:
a: 79.974Å b: 87.016Å c: 105.37Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.232 0.228 0.27
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

10 review citations

RNA Structural Dynamics As Captured by Molecular Simulations: A Comprehensive Overview.
Šponer et al. (2018)
9 more

5 mentions without citation

Interaction of Vanadium Complexes with Proteins: Revisiting the Reported Structures in the Protein Data Bank (PDB) since 2015.
Santos et al. (2023)
4 more