› 429d

X-ray diffraction
2.7Å resolution

CRYSTAL STRUCTURE OF A LEADZYME; METAL BINDING AND IMPLICATIONS FOR CATALYSIS

Released:
DOI: 10.2210/pdb429d/pdb
PDB entry 429d coloured by chain, front view.
PDB entry 429d coloured by chain, side view.
PDB entry 429d coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
Crystal structure of a lead-dependent ribozyme revealing metal binding sites relevant to catalysis.
Wedekind JE, McKay DB
Nat Struct Biol 6 261-8 (1999)
PMID: 10074945

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-196765 (preferred)
Entry contents:
2 distinct RNA molecules
Macromolecules (2 distinct):
RNA (5'-R(*CP*GP*GP*AP*CP*CP*GP*AP*GP*CP*CP*AP*G)-3') Chains: A, C
Molecule details ›
Chains: A, C
Length: 13 nucleotides
Theoretical weight: 4.19 KDa
Source organism: Synthetic construct
Expression system: Not provided
RNA (5'-R(*GP*CP*UP*GP*GP*GP*AP*GP*UP*CP*C)-3') Chains: B, D
Molecule details ›
Chains: B, D
Length: 11 nucleotides
Theoretical weight: 3.54 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand MG 2 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL7-1
Spacegroup: P6122
Unit cell:
a: 60.4Å b: 60.4Å c: 133.1Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.255 0.255 0.275
Expression system: Not provided

Quick links

Citations

17 review citations

Ribozyme structures and mechanisms.
Doherty et al. (2001)
16 more

3 mentions without citation

Multistrand RNA secondary structure prediction and nanostructure design including pseudoknots.
Bindewald et al. (2011)
2 more