SMTL ID : 9mfg.4 (3 other biounits)

Complex of IL23 receptor and VHH

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.85 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- MAN- NAG- FUC: alpha-D-mannopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)][alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-MAN-NAG-FUC.1: 4 residues within 4Å: Chain A: G.23, M.24, N.25, W.66 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:W.66

1 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUC.2: 8 residues within 4Å: Chain A: H.11, W.13, Y.29, Q.31, I.58, N.59, T.61, T.62 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.29, A:W.13

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.3: 5 residues within 4Å: Chain A: Y.116, S.117, N.119, N.158 Ligands: NAG.4 No protein-ligand interaction detected (PLIP)

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.4: 7 residues within 4Å: Chain A: T.153, S.155, Y.156, I.157, N.158 Ligands: NAG-NAG.3, NAG-NAG.3 No protein-ligand interaction detected (PLIP)

3 x SCN: THIOCYANATE ION(Non-functional Binders)

SCN.5: 5 residues within 4Å: Chain A: K.46, Y.67, F.70, L.71, E.72 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.71, A:E.72, A:E.72 SCN.6: 2 residues within 4Å: Chain A: R.234, W.285 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.234 SCN.7: 6 residues within 4Å: Chain A: I.113, E.115, Y.116, S.117, G.118, T.161 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.116

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 6 residues within 4Å: Chain B: G.65, R.66, F.67, T.68, N.83 Ligands: SO4.9 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.66, B:T.68, B:T.68, B:N.83

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.9: 4 residues within 4Å: Chain B: T.68, Q.81, N.83 Ligands: GOL.8 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.68, B:N.83

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ota, N. et al., Oral single domain antibody inhibition of IL-23 signaling. To Be Published

Release Date

2025-05-21

Peptides

Interleukin-23 receptor: A
VHH: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

Interleukin-23 receptor

VHH

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