› 7elr

X-ray diffraction
2.66Å resolution

Crystal structure of xanthine riboswitch with xanthine

Released:
DOI: 10.2210/pdb7elr/pdb
PDB entry 7elr coloured by chain, front view.
PDB entry 7elr coloured by chain, side view.
PDB entry 7elr coloured by chain, top view.
Source organism: Ideonella sp. B508-1
Primary publication:
Insights into xanthine riboswitch structure and metal ion-mediated ligand recognition.
Xu X, Egger M, Chen H, Bartosik K, Micura R, Ren A
Nucleic Acids Res 49 7139-7153 (2021)
PMID: 34125892

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-195943 (preferred)
Entry contents:
1 distinct RNA molecule
Macromolecule:
NMT1 (46-MER) Chains: A, B
Molecule details ›
Chains: A, B
Length: 45 nucleotides
Theoretical weight: 14.56 KDa
Source organism: Ideonella sp. B508-1
Expression system: in vitro transcription vector pT7-TP(deltai)
Sequence domains: Xanthine riboswitch (NMT1 RNA)

Ligands and Environments

3 bound ligands:
Ligand GTP 2 x GTP
Ligand XAN 2 x XAN
Ligand MG 15 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL19U1
Spacegroup: P21212
Unit cell:
a: 80.439Å b: 96.247Å c: 41.475Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.244 0.243 0.265
Expression system: in vitro transcription vector pT7-TP(deltai)

Quick links

Citations

1 review citation

Riboswitches, from cognition to transformation.
Xu et al. (2023)
6 other articles

2 mentions without citation

Insights into xanthine riboswitch structure and metal ion-mediated ligand recognition.
Xu et al. (2021)
1 more