› 6s5s

X-ray diffraction
1.43Å resolution

Cfucosylated second generation peptide dendrimer SBD8 bound to Fucose binding Lectin LecB (PA-IIL) from Pseudomonas aeruginosa at 1.43 Angstrom resolution

Released:
DOI: 10.2210/pdb6s5s/pdb
PDB entry 6s5s coloured by chain, front view.
PDB entry 6s5s coloured by chain, side view.
PDB entry 6s5s coloured by chain, top view.
Source organisms:
Primary publication:
X-Ray Crystal Structure of a Second Generation Peptide Dendrimer in Complex with Pseudomonas aeruginosa Lectin LecB
Baeriswyl S, Javor S, Stocker A, Darbre T, Reymond J-L
Helv. Chim. Acta (2019)

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-167438 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
Calcium-mediated lectin domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 115 amino acids
Theoretical weight: 11.87 KDa
Source organism: Pseudomonas aeruginosa
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: Q9HYN5 (Residues: 1-115; Coverage: 100%)
Gene names: PA3361, lecB
Sequence domains: Fucose-binding lectin II (PA-IIL)
SBD8 chain B Chain: B
Molecule details ›
Chain: B
Length: 7 amino acids
Theoretical weight: 806 Da
Source organism: unidentified
Expression system: Not provided
SBD8 chain C Chains: C, E
Molecule details ›
Chains: C, E
Length: 3 amino acids
Theoretical weight: 357 Da
Source organism: unidentified
Expression system: Not provided
SBD8 chain D Chain: D
Molecule details ›
Chain: D
Length: 6 amino acids
Theoretical weight: 720 Da
Source organism: unidentified
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand CA 2 x CA
Ligand NH2 1 x NH2
Ligand ZDC 1 x ZDC
1 modified residue:
Ligand DPP 3 x DPP

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06DA
Spacegroup: P622
Unit cell:
a: 106.297Å b: 106.297Å c: 57.09Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.164 0.163 0.178
Expression systems:
  • Escherichia coli 'BL21-Gold(DE3)pLysS AG'
  • Not provided

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