› 5iml

X-ray diffraction
1.8Å resolution

Nanobody targeting human Vsig4 in Spacegroup P212121

Released:
DOI: 10.2210/pdb5iml/pdb
PDB entry 5iml coloured by chain, front view.
PDB entry 5iml coloured by chain, side view.
PDB entry 5iml coloured by chain, top view.
Source organisms:
Primary publication:
Structural evaluation of a nanobody targeting complement receptor Vsig4 and its cross reactivity.
Wen Y, Ouyang Z, Schoonooghe S, Luo S, De Baetselier P, Lu W, Muyldermans S, Raes G, Zheng F
Immunobiology 222 807-813 (2017)
PMID: 27889311

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-212871 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
V-set and immunoglobulin domain-containing protein 4 Chain: A
Molecule details ›
Chain: A
Length: 220 amino acids
Theoretical weight: 24.61 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9Y279 (Residues: 19-232; Coverage: 56%)
Gene names: CRIg, UNQ317/PRO362, VSIG4, Z39IG
Sequence domains:
Structure domains: Immunoglobulins
Nanobody Chain: B
Molecule details ›
Chain: B
Length: 131 amino acids
Theoretical weight: 14.6 KDa
Source organism: Camelidae
Expression system: Escherichia coli
Structure domains: Immunoglobulins

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL19U1
Spacegroup: P212121
Unit cell:
a: 29.269Å b: 50.048Å c: 160.648Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.185 0.181 0.226
Expression system: Escherichia coli

Quick links

Citations

1 review citation

Nanobodies Provide Insight into the Molecular Mechanisms of the Complement Cascade and Offer New Therapeutic Strategies.
Zarantonello et al. (2021)
10 other articles

5 mentions without citation

Structural biology of complement receptors.
Santos-López et al. (2023)
4 more