› 3egz

X-ray diffraction
2.2Å resolution

Crystal structure of an in vitro evolved tetracycline aptamer and artificial riboswitch

Released:
DOI: 10.2210/pdb3egz/pdb
PDB entry 3egz coloured by chain, front view.
PDB entry 3egz coloured by chain, side view.
PDB entry 3egz coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis for specific, high-affinity tetracycline binding by an in vitro evolved aptamer and artificial riboswitch.
Xiao H, Edwards TE, Ferré-D'Amaré AR
Chem Biol 15 1125-37 (2008)
PMID: 18940672

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero octamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-140524 (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: 98 amino acids
Theoretical weight: 11.57 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P09012 (Residues: 1-98; Coverage: 35%)
Gene name: SNRPA
Sequence domains: RNA recognition motif
Structure domains: Alpha-Beta Plaits
Tetracycline aptamer and artificial riboswitch Chain: B
Molecule details ›
Chain: B
Length: 65 nucleotides
Theoretical weight: 20.91 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand MG 12 x MG
Ligand CTC 1 x CTC
1 modified residue:
Ligand MSE 5 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 5.0.2
Spacegroup: P4212
Unit cell:
a: 120.835Å b: 120.835Å c: 55.279Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.217 0.212 0.26
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

20 review citations

Riboswitches: discovery of drugs that target bacterial gene-regulatory RNAs.
Deigan et al. (2011)
19 more

12 mentions without citation

Selection and Biosensor Application of Aptamers for Small Molecules.
Pfeiffer et al. (2016)
11 more