› 3iwn

X-ray diffraction
3.2Å resolution

Co-crystal structure of a bacterial c-di-GMP riboswitch

Released:
DOI: 10.2210/pdb3iwn/pdb
PDB entry 3iwn coloured by chain, front view.
PDB entry 3iwn coloured by chain, side view.
PDB entry 3iwn coloured by chain, top view.
Source organisms:
Primary publication:
Recognition of the bacterial second messenger cyclic diguanylate by its cognate riboswitch.
Kulshina N, Baird NJ, Ferré-D'Amaré AR
Nat Struct Mol Biol 16 1212-7 (2009)
PMID: 19898478

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-215843 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
U1 small nuclear ribonucleoprotein A Chains: C, D
Molecule details ›
Chains: C, D
Length: 91 amino acids
Theoretical weight: 10.55 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P09012 (Residues: 6-96; Coverage: 32%)
Gene name: SNRPA
Sequence domains: RNA recognition motif
Structure domains: Alpha-Beta Plaits
C-di-GMP riboswitch Chains: A, B
Molecule details ›
Chains: A, B
Length: 93 nucleotides
Theoretical weight: 30.09 KDa
Source organism: Vibrio cholerae
Expression system: Not provided
Sequence domains: Cyclic di-GMP-I riboswitch

Ligands and Environments

1 bound ligand:
Ligand C2E 2 x C2E
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 8.2.2
Spacegroup: P212121
Unit cell:
a: 31.8Å b: 91Å c: 280.1Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.222 0.222 0.292
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

31 review citations

Cyclic di-GMP: the first 25 years of a universal bacterial second messenger.
Römling et al. (2013)
30 more

20 mentions without citation

Long-Range Interactions in Riboswitch Control of Gene Expression.
Jones et al. (2017)
19 more