› 5oxs

X-ray diffraction
1.65Å resolution

Crystal structure of human lung surfactant protein D trimeric fragment with bound ligand Salmonella enterica Minnesota R5 oligosaccharide

Released:
DOI: 10.2210/pdb5oxs/pdb
PDB entry 5oxs coloured by chain, front view.
PDB entry 5oxs coloured by chain, side view.
PDB entry 5oxs coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural definition of hSP-D recognition of Salmonella enterica LPS inner core oligosaccharides reveals alternative binding modes for the same LPS.
Littlejohn JR, da Silva RF, Neale WA, Smallcombe CC, Clark HW, Mackay RA, Watson AS, Madsen J, Hood DW, Burns I, Greenhough TJ, Shrive AK
PLoS One 13 e0199175 (2018)
PMID: 29912941

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-152870 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Pulmonary surfactant-associated protein D Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 177 amino acids
Theoretical weight: 18.83 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P35247 (Residues: 201-375; Coverage: 49%)
Gene names: COLEC7, PSPD, SFTP4, SFTPD
Sequence domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: K5B, GMH, GLC
Carbohydrate polymer
1 bound ligand:
Ligand CA 5 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04-1
Spacegroup: P21
Unit cell:
a: 55.679Å b: 108.51Å c: 56.17Å
α: 90° β: 92.89° γ: 90°
R-values:
R R work R free
0.166 0.165 0.187
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

6 review citations

SP-A and SP-D: Dual Functioning Immune Molecules With Antiviral and Immunomodulatory Properties.
Watson et al. (2020)
5 more

1 mention without citation

Structural definition of hSP-D recognition of Salmonella enterica LPS inner core oligosaccharides reveals alternative binding modes for the same LPS.
Littlejohn et al. (2018)