› 4kqy

X-ray diffraction
3.02Å resolution

Bacillus subtilis yitJ S box/SAM-I riboswitch

Released:
DOI: 10.2210/pdb4kqy/pdb
PDB entry 4kqy coloured by chain, front view.
PDB entry 4kqy coloured by chain, side view.
PDB entry 4kqy coloured by chain, top view.
Source organism: Bacillus subtilis subsp. subtilis str. BSP1
Primary publication:
SAM recognition and conformational switching mechanism in the Bacillus subtilis yitJ S box/SAM-I riboswitch.
Lu C, Ding F, Chowdhury A, Pradhan V, Tomsic J, Holmes WM, Henkin TM, Ke A
J Mol Biol 404 803-18 (2010)
PMID: 20951706

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-195849 (preferred)
Entry contents:
1 distinct RNA molecule
Macromolecule:
YitJ S box/SAM-I riboswitch Chain: A
Molecule details ›
Chain: A
Length: 119 nucleotides
Theoretical weight: 38.57 KDa
Source organism: Bacillus subtilis subsp. subtilis str. BSP1
Expression system: Not provided
Sequence domains: SAM riboswitch (S box leader)

Ligands and Environments

2 bound ligands:
Ligand SAM 1 x SAM
Ligand MG 2 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: CHESS BEAMLINE F1
Spacegroup: P3121
Unit cell:
a: 58.732Å b: 58.732Å c: 204.091Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.243 0.237 0.3
Expression system: Not provided

Quick links

Citations

11 review citations

Understanding the transcriptome through RNA structure.
Wan et al. (2011)
10 more

12 mentions without citation

Using RNA Sequence and Structure for the Prediction of Riboswitch Aptamer: A Comprehensive Review of Available Software and Tools.
Antunes et al. (2017)
11 more