› 6cc3

X-ray diffraction
2.7Å resolution

Crystal structure of ykoY-mntP riboswitch chimera bound to cadmium

Released:
DOI: 10.2210/pdb6cc3/pdb
Model geometry
Fit model/data
PDB entry 6cc3 coloured by chain, front view.
PDB entry 6cc3 coloured by chain, side view.
PDB entry 6cc3 coloured by chain, top view.
Source organism: Lactococcus lactis
Primary publication:
Convergent Use of Heptacoordination for Cation Selectivity by RNA and Protein Metalloregulators.
Bachas ST, Ferré-D'Amaré AR
Cell Chem Biol 25 962-973.e5 (2018)
PMID: 29805037

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-303232 (preferred)
Entry contents:
1 distinct RNA molecule
Macromolecule:
RNA (101-MER) Chains: A, B
Molecule details ›
Chains: A, B
Length: 101 nucleotides
Theoretical weight: 32.67 KDa
Source organism: Lactococcus lactis
Expression system: Not provided
Sequence domains: Manganese Mn2+ riboswitch aptamer (yybP-ykoY)

Ligands and Environments

3 bound ligands:
Ligand CD 12 x CD
Ligand MG 16 x MG
Ligand GTP 2 x GTP
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: ALS BEAMLINE 5.0.1
Spacegroup: C2
Unit cell:
a: 125.531Å b: 68.288Å c: 83.384Å
α: 90° β: 97.96° γ: 90°
R-values:
R R work R free
0.201 0.196 0.248
Expression system: Not provided

Quick links

Citations

3 review citations

Bacterial manganese sensing and homeostasis.
Waters LS. (2020)
2 more

1 mention without citation

Convergent Use of Heptacoordination for Cation Selectivity by RNA and Protein Metalloregulators.
Bachas et al. (2018)