› 5ndi

X-ray diffraction
2.57Å resolution

The structure of the E.coli guanidine II riboswitch P1 stem-loop

Released:
DOI: 10.2210/pdb5ndi/pdb
PDB entry 5ndi coloured by chain, front view.
PDB entry 5ndi coloured by chain, side view.
PDB entry 5ndi coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
The Structure of the Guanidine-II Riboswitch.
Huang L, Wang J, Lilley DMJ
Cell Chem Biol 24 695-702.e2 (2017)
PMID: 28529131

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-196960 (preferred)
Entry contents:
1 distinct RNA molecule
Macromolecule:
RNA (5'-R(*UP*UP*UP*GP*CP*AP*GP*GP*AP*CP*GP*AP*CP*CP*UP*GP*(CBV)P*AP*AP*A)-3') Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 20 nucleotides
Theoretical weight: 6.49 KDa
Source organism: Escherichia coli
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand GAI 4 x GAI
Ligand NA 1 x NA
1 modified residue:
Ligand CBV 4 x CBV

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04
Spacegroup: P212121
Unit cell:
a: 47.476Å b: 48.185Å c: 153.066Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.19 0.188 0.238
Expression system: Not provided

Quick links

Citations

6 review citations

Former orphan riboswitches reveal unexplored areas of bacterial metabolism, signaling, and gene control processes.
Sherlock et al. (2020)
5 more

8 mentions without citation

Structural Insights into RNA Dimerization: Motifs, Interfaces and Functions.
Bou-Nader et al. (2020)
7 more