› 5stv

X-ray diffraction
1.5Å resolution

PanDDA analysis group deposition -- Aar2/RNaseH in complex with fragment P03C11 from the F2X-Universal Library

Released:
DOI: 10.2210/pdb5stv/pdb
PDB entry 5stv coloured by chain, front view.
PDB entry 5stv coloured by chain, side view.
PDB entry 5stv coloured by chain, top view.
Source organism: Saccharomyces cerevisiae S288C
Primary publication:
Large-Scale Crystallographic Fragment Screening Expedites Compound Optimization and Identifies Putative Protein-Protein Interaction Sites.
Barthel T, Wollenhaupt J, Lima GMA, Wahl MC, Weiss MS
J Med Chem (2022)
PMID: 36260741

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-152275 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Pre-mRNA-splicing factor 8 Chain: A
Molecule details ›
Chain: A
Length: 258 amino acids
Theoretical weight: 29.5 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli
UniProt:
  • Canonical: P33334 (Residues: 1836-2090; Coverage: 11%)
Gene names: DBF3, DNA39, PRP8, RNA8, SLT21, USA2, YHR165C
Sequence domains: PRP8 domain IV core
A1 cistron-splicing factor AAR2 Chain: B
Molecule details ›
Chain: B
Length: 308 amino acids
Theoretical weight: 36.21 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli
UniProt:
  • Canonical: P32357 (Residues: 1-317; Coverage: 86%)
Gene names: AAR2, YBL06.06, YBL0611, YBL074C
Sequence domains:

Ligands and Environments

1 bound ligand:
Ligand V86 1 x V86
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: MAX IV BEAMLINE BioMAX
Spacegroup: C2
Unit cell:
a: 89.158Å b: 81.908Å c: 93.471Å
α: 90° β: 108.38° γ: 90°
R-values:
R R work R free
0.213 0.212 0.242
Expression system: Escherichia coli

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