› 5nex

X-ray diffraction
1.72Å resolution

The structure of the G. violaceus guanidine II riboswitch P1 stem-loop with agmatine

Released:
DOI: 10.2210/pdb5nex/pdb
PDB entry 5nex coloured by chain, front view.
PDB entry 5nex coloured by chain, side view.
PDB entry 5nex coloured by chain, top view.
Source organism: Gloeobacter violaceus
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-196965 (preferred)
Entry contents:
1 distinct RNA molecule
Macromolecule:
RNA (5'-R(*GP*GP*UP*GP*GP*GP*GP*AP*CP*GP*AP*CP*CP*CP*CP*AP*(CBV)P*C)-3') Chain: A
Molecule details ›
Chain: A
Length: 18 nucleotides
Theoretical weight: 5.88 KDa
Source organism: Gloeobacter violaceus
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand NA 8 x NA
Ligand AG2 1 x AG2
1 modified residue:
Ligand CBV 1 x CBV

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-1
Spacegroup: R32
Unit cell:
a: 55.639Å b: 55.639Å c: 135.927Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.202 0.2 0.233
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

1 mention without citation

The Structure of the Guanidine-II Riboswitch.
Huang et al. (2017)