› 4d5b

X-ray diffraction
1.7Å resolution

Crystal structure of CymA from Klebsiella oxytoca

Released:
DOI: 10.2210/pdb4d5b/pdb
PDB entry 4d5b coloured by chain, front view.
PDB entry 4d5b coloured by chain, side view.
PDB entry 4d5b coloured by chain, top view.
Source organism: Klebsiella oxytoca
Primary publication:
Outer-membrane translocation of bulky small molecules by passive diffusion.
van den Berg B, Prathyusha Bhamidimarri S, Dahyabhai Prajapati J, Kleinekathöfer U, Winterhalter M
Proc Natl Acad Sci U S A 112 E2991-9 (2015)
PMID: 26015567

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-175346 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
CymA protein Chains: A, B
Molecule details ›
Chains: A, B
Length: 339 amino acids
Theoretical weight: 39.91 KDa
Source organism: Klebsiella oxytoca
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q48391 (Residues: 23-346; Coverage: 100%)
Gene name: cymA
Sequence domains: Putative cyclodextrin porin

Ligands and Environments

Carbohydrate polymer : NEW Components: GLC
Carbohydrate polymer
1 bound ligand:
Ligand C8E 30 x C8E
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I02
Spacegroup: P21212
Unit cell:
a: 140.559Å b: 77.397Å c: 110.792Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.168 0.167 0.19
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

3 review citations

Understanding antibiotic resistance via outer membrane permeability.
Ghai et al. (2018)
2 more

3 mentions without citation

Outer-membrane translocation of bulky small molecules by passive diffusion.
van den Berg et al. (2015)
2 more