› 1od9

X-ray diffraction
2.1Å resolution

N-terminal of Sialoadhesin in complex with Me-a-9-N-benzoyl-amino-9-deoxy-Neu5Ac (BENZ compound)

Released:
DOI: 10.2210/pdb1od9/pdb
PDB entry 1od9 coloured by chain, front view.
PDB entry 1od9 coloured by chain, side view.
PDB entry 1od9 coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Structure-guided design of sialic acid-based Siglec inhibitors and crystallographic analysis in complex with sialoadhesin.
Zaccai NR, Maenaka K, Maenaka T, Crocker PR, Brossmer R, Kelm S, Jones EY
Structure 11 557-67 (2003)
PMID: 12737821

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-178923 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Sialoadhesin Chain: A
Molecule details ›
Chain: A
Length: 119 amino acids
Theoretical weight: 13.32 KDa
Source organism: Mus musculus
Expression system: Cricetulus griseus
UniProt:
  • Canonical: Q62230 (Residues: 20-138; Coverage: 7%)
Gene names: Sa, Siglec1, Sn
Sequence domains: Immunoglobulin V-set domain
Structure domains: Immunoglobulins

Ligands and Environments

2 bound ligands:
Ligand BND 1 x BND
Ligand SO4 1 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SRS BEAMLINE PX9.6
Spacegroup: P43212
Unit cell:
a: 67.86Å b: 67.86Å c: 69.247Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.209 0.209 0.253
Expression system: Cricetulus griseus

Quick links

Citations

10 review citations

Siglecs and their roles in the immune system.
Crocker et al. (2007)
9 more

3 mentions without citation

TIM-1 acts a dual-attachment receptor for Ebolavirus by interacting directly with viral GP and the PS on the viral envelope.
Yuan et al. (2015)
2 more