PDBe 3hjw

X-ray diffraction
2.35Å resolution

Structure of a functional ribonucleoprotein pseudouridine synthase bound to a substrate RNA

Released:
Source organism: Pyrococcus furiosus

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
Entry contents:
3 distinct polypeptide molecules
2 distinct RNA molecules
Macromolecules (5 distinct):
Probable tRNA pseudouridine synthase B Chain: A
Molecule details ›
Chain: A
Length: 327 amino acids
Theoretical weight: 36.99 KDa
Source organism: Pyrococcus furiosus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q7LWY0 (Residues: 8-334; Coverage: 96%)
Gene names: PF1785, truB
Sequence domains:
Structure domains:
Ribosome biogenesis protein Nop10 Chain: B
Molecule details ›
Chain: B
Length: 53 amino acids
Theoretical weight: 6.35 KDa
Source organism: Pyrococcus furiosus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8U1R4 (Residues: 3-55; Coverage: 88%)
Gene names: PF1141, nop10
Structure domains: H/ACA ribonucleoprotein complex, subunit Nop10
50S ribosomal protein L7Ae Chain: C
Molecule details ›
Chain: C
Length: 120 amino acids
Theoretical weight: 13.08 KDa
Source organism: Pyrococcus furiosus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8U160 (Residues: 3-122; Coverage: 98%)
Gene names: PF1367, rpl7ae
Sequence domains: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
Structure domains: 60s Ribosomal Protein L30; Chain: A;
RNA (58-MER) Chain: D
Molecule details ›
Chain: D
Length: 58 nucleotides
Theoretical weight: 18.69 KDa
Sequence domains: Pab160 RNA
5'-R(*GP*AP*GP*CP*GP*(FHU)P*GP*CP*GP*GP*UP*UP*U)-3' Chain: E
Molecule details ›
Chain: E
Length: 13 nucleotides
Theoretical weight: 4.23 KDa

Ligands and Environments

2 bound ligands:

1 modified residue:

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P21212
Unit cell:
a: 186.013Å b: 63.026Å c: 85.447Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.218 0.217 0.248
Expression system: Escherichia coli