› 7u0y

X-ray diffraction
2.66Å resolution

Crystal structure of Pepper RNA aptamer in complex with HBC599 ligand and Fab BL3-6

Released:
DOI: 10.2210/pdb7u0y/pdb
PDB entry 7u0y coloured by chain, front view.
PDB entry 7u0y coloured by chain, side view.
PDB entry 7u0y coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Structural Basis for Fluorescence Activation by Pepper RNA.
Rees HC, Gogacz W, Li NS, Koirala D, Piccirilli JA
ACS Chem Biol (2022)
PMID: 35759696

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-226389 (preferred)
Entry contents:
2 distinct polypeptide molecules
1 distinct RNA molecule
Macromolecules (3 distinct):
Fab BL3-6 heavy chain Chain: H
Molecule details ›
Chain: H
Length: 223 amino acids
Theoretical weight: 23.66 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
Fab BL3-6 light chain Chain: L
Molecule details ›
Chain: L
Length: 212 amino acids
Theoretical weight: 23.11 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
RNA aptamer Chain: R
Molecule details ›
Chain: R
Length: 67 nucleotides
Theoretical weight: 21.73 KDa

Ligands and Environments

2 bound ligands:
Ligand KY6 1 x KY6
Ligand MG 2 x MG
1 modified residue:
Ligand GTP 1 x GTP

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-E
Spacegroup: P212121
Unit cell:
a: 61.247Å b: 96.071Å c: 148.165Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.222 0.219 0.255
Expression system: Escherichia coli

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Citations

1 review citation

Structural Insights into Protein-Aptamer Recognitions Emerged from Experimental and Computational Studies.
Troisi et al. (2023)
2 other articles