› 3zd5

X-ray diffraction
2.2Å resolution

THE 2.2 A STRUCTURE OF A FULL-LENGTH CATALYTICALLY ACTIVE HAMMERHEAD RIBOZYME

Released:
DOI: 10.2210/pdb3zd5/pdb
PDB entry 3zd5 coloured by chain, front view.
PDB entry 3zd5 coloured by chain, side view.
PDB entry 3zd5 coloured by chain, top view.
Source organism: Schistosoma mansoni
Primary publication:
Tertiary contacts distant from the active site prime a ribozyme for catalysis.
Martick M, Scott WG
Cell 126 309-20 (2006)
PMID: 16859740

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-196756 (preferred)
Entry contents:
2 distinct RNA molecules
Macromolecules (2 distinct):
HAMMERHEAD RIBOZYME, ENZYME STRAND Chain: A
Molecule details ›
Chain: A
Length: 43 nucleotides
Theoretical weight: 13.94 KDa
Source organism: Schistosoma mansoni
Expression system: Not provided
HAMMERHEAD RIBOZYME, SUBSTRATE STRAND Chain: B
Molecule details ›
Chain: B
Length: 20 nucleotides
Theoretical weight: 6.49 KDa
Source organism: Schistosoma mansoni
Expression system: Not provided

Ligands and Environments

No bound ligands
3 modified residues:
Ligand GDP 1 x GDP
Ligand OMC 1 x OMC
Ligand 5BU 2 x 5BU

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL9-1
Spacegroup: C2
Unit cell:
a: 49.886Å b: 69.21Å c: 60.076Å
α: 90° β: 111.83° γ: 90°
R-values:
R R work R free
0.18 0.177 0.212
Expression system: Not provided

Quick links

Citations

68 review citations

Riboswitches: emerging themes in RNA structure and function.
Montange et al. (2008)
67 more

9 mentions without citation

Chemistry and Biology of Self-Cleaving Ribozymes.
Jimenez et al. (2015)
8 more