› 4grw

X-ray diffraction
2.55Å resolution

Structure of a complex of human IL-23 with 3 Nanobodies (Llama vHHs)

Released:
DOI: 10.2210/pdb4grw/pdb
PDB entry 4grw coloured by chain, front view.
PDB entry 4grw coloured by chain, side view.
PDB entry 4grw coloured by chain, top view.
Source organisms:
Primary publication:
Neutralization of Human Interleukin 23 by Multivalent Nanobodies Explained by the Structure of Cytokine-Nanobody Complex.
Desmyter A, Spinelli S, Boutton C, Saunders M, Blachetot C, de Haard H, Denecker G, Van Roy M, Cambillau C, Rommelaere H
Front Immunol 8 884 (2017)
PMID: 28871249

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-210994 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (6 distinct):
Interleukin-23 subunit alpha Chains: A, C
Molecule details ›
Chains: A, C
Length: 189 amino acids
Theoretical weight: 20.75 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q9NPF7 (Residues: 1-189; Coverage: 100%)
Gene names: IL23A, SGRF, UNQ2498/PRO5798
Sequence domains: Interleukin 23 subunit alpha
Structure domains: Growth Hormone; Chain: A;
Interleukin-12 subunit beta Chains: B, D
Molecule details ›
Chains: B, D
Length: 328 amino acids
Theoretical weight: 37.21 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P29460 (Residues: 1-328; Coverage: 100%)
Gene names: IL12B, NKSF2
Sequence domains: Cytokine interleukin-12p40 C-terminus
Structure domains: Immunoglobulins
Nanobody 124C4 Chains: E, G
Molecule details ›
Chains: E, G
Length: 125 amino acids
Theoretical weight: 13.4 KDa
Source organism: Lama glama
Expression system: Escherichia coli BL21
Structure domains: Immunoglobulins
Nanobody 37D5 Chains: F, J
Molecule details ›
Chains: F, J
Length: 126 amino acids
Theoretical weight: 13.85 KDa
Source organism: Lama glama
Expression system: Escherichia coli BL21
Structure domains: Immunoglobulins
Nanobody 22E11 Chains: H, I
Molecule details ›
Chains: H, I
Length: 123 amino acids
Theoretical weight: 13.38 KDa
Source organism: Lama glama
Expression system: Escherichia coli BL21
Structure domains: Immunoglobulins

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID29
Spacegroup: P212121
Unit cell:
a: 102.27Å b: 135.14Å c: 139.01Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.184 0.183 0.218
Expression systems:
  • Spodoptera frugiperda
  • Escherichia coli BL21

Quick links

Citations

6 review citations

Nanobodies: Next Generation of Cancer Diagnostics and Therapeutics.
Yang et al. (2020)
5 more

12 mentions without citation

Pathophysiology and inhibition of IL-23 signaling in psoriatic arthritis: A molecular insight.
Nguyen et al. (2019)
11 more