› 3bo2

X-ray diffraction
3.31Å resolution

A relaxed active site following exon ligation by a group I intron

Released:
DOI: 10.2210/pdb3bo2/pdb
PDB entry 3bo2 coloured by chain, front view.
PDB entry 3bo2 coloured by chain, side view.
PDB entry 3bo2 coloured by chain, top view.
Source organisms:
Primary publication:
A relaxed active site after exon ligation by the group I intron.
Lipchock SV, Strobel SA
Proc Natl Acad Sci U S A 105 5699-704 (2008)
PMID: 18408159

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-140480 (preferred)
Entry contents:
1 distinct polypeptide molecule
4 distinct RNA molecules
Macromolecules (5 distinct):
U1 small nuclear ribonucleoprotein A Chain: A
Molecule details ›
Chain: A
Length: 95 amino acids
Theoretical weight: 11.04 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P09012 (Residues: 4-98; Coverage: 34%)
Gene name: SNRPA
Sequence domains: RNA recognition motif
Structure domains: Alpha-Beta Plaits
Group I intron P9 Chain: B
Molecule details ›
Chain: B
Length: 197 nucleotides
Theoretical weight: 64.06 KDa
Source organism: synthetic construct
Expression system: Not provided
RNA (5'-R(*AP*AP*GP*CP*CP*AP*CP*AP*CP*AP*AP*AP*CP*CP*AP*G)-3') Chain: C
Molecule details ›
Chain: C
Length: 16 nucleotides
Theoretical weight: 5.11 KDa
Source organism: synthetic construct
Expression system: Not provided
RNA (5'-R(*AP*CP*GP*GP*CP*C)-3') Chain: D
Molecule details ›
Chain: D
Length: 6 nucleotides
Theoretical weight: 1.89 KDa
Source organism: synthetic construct
Expression system: Not provided
RNA (5'-R(*CP*AP*U)-3') Chain: E
Molecule details ›
Chain: E
Length: 3 nucleotides
Theoretical weight: 896 Da
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand MG 10 x MG
2 modified residues:
Ligand GTP 1 x GTP
Ligand A23 1 x A23

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X25
Spacegroup: P4122
Unit cell:
a: 108.96Å b: 108.96Å c: 249.495Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.292 0.291 0.321
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

3 review citations

Structural insights into RNA splicing.
Toor et al. (2009)
2 more

5 mentions without citation

Progress and challenges for chemical probing of RNA structure inside living cells.
Kubota et al. (2015)
4 more