› 6ij2

X-ray diffraction
1.7Å resolution

Crystal structure of a standalone versatile EAL protein from Vibrio cholerae O395 - 5'-pGpG bound form

Released:
DOI: 10.2210/pdb6ij2/pdb
PDB entry 6ij2 coloured by chain, front view.
PDB entry 6ij2 coloured by chain, side view.
PDB entry 6ij2 coloured by chain, top view.
Source organisms:
Primary publication:
Structures of c-di-GMP/cGAMP degrading phosphodiesterase VcEAL: identification of a novel conformational switch and its implication.
Yadav M, Pal K, Sen U
Biochem J 476 3333-3353 (2019)
PMID: 31647518

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-493845 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
EAL domain-containing protein Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 257 amino acids
Theoretical weight: 29.03 KDa
Source organism: Vibrio cholerae O395
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A0A0H3AJ04 (Residues: 1-257; Coverage: 100%)
Gene name: VC0395_A1247
Sequence domains: EAL domain
RNA (5'-R(P*GP*G)-3') Chains: E, F, G, H
Molecule details ›
Chains: E, F, G, H
Length: 2 nucleotides
Theoretical weight: 645 Da
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand CA 16 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE MASSIF-3
Spacegroup: P21
Unit cell:
a: 73.483Å b: 42.711Å c: 158.47Å
α: 90° β: 94.94° γ: 90°
R-values:
R R work R free
0.184 0.182 0.22
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

3 review citations

The ever-expanding world of bacterial cyclic oligonucleotide second messengers.
Yoon et al. (2021)
2 more