› 1vbz

X-ray diffraction
2.8Å resolution

Crystal Structure of the Hepatitis Delta Virus Gemonic Ribozyme Precursor, with C75U mutaion, in Ba2+ solution

Released:
DOI: 10.2210/pdb1vbz/pdb
PDB entry 1vbz coloured by chain, front view.
PDB entry 1vbz coloured by chain, side view.
PDB entry 1vbz coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
A conformational switch controls hepatitis delta virus ribozyme catalysis.
Ke A, Zhou K, Ding F, Cate JH, Doudna JA
Nature 429 201-5 (2004)
PMID: 15141216

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-140472 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
U1 small nuclear ribonucleoprotein A Chain: A
Molecule details ›
Chain: A
Length: 100 amino acids
Theoretical weight: 11.5 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P09012 (Residues: 1-100; Coverage: 36%)
Gene name: SNRPA
Sequence domains: RNA recognition motif
Structure domains: Alpha-Beta Plaits
Hepatitis Delta virus ribozyme Chain: B
Molecule details ›
Chain: B
Length: 76 nucleotides
Theoretical weight: 24.47 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 8.3.1
Spacegroup: R32
Unit cell:
a: 108.63Å b: 108.63Å c: 190.072Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.255 0.253 0.268
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

44 review citations

Making and breaking nucleic acids: two-Mg2+-ion catalysis and substrate specificity.
Yang et al. (2006)
43 more

4 mentions without citation

Two distinct catalytic strategies in the hepatitis δ virus ribozyme cleavage reaction.
Golden BL. (2011)
3 more