SMTL ID : 8ywp.1

Crystal structure of the Fab fragment of anti-IL-6 antibody I9H

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-1-1-mer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 6 residues within 4Å: Chain A: G.173, V.174, H.175 Chain B: D.167, K.169 Ligands: PGE.2 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:G.173, A:V.174 Water bridges: B:D.167, B:D.167 GOL.3: 1 residues within 4Å: Chain B: V.15 No protein-ligand interaction detected (PLIP)

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.2: 10 residues within 4Å: Chain A: V.174, H.175 Chain B: N.138, T.164, E.165, D.167, T.172, Y.173, S.174 Ligands: GOL.1 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:T.164, B:T.172, B:T.172, A:H.175 Water bridges: A:T.176

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yudenko, A. et al., Structural basis of signaling complex inhibition by IL-6 domain-swapped dimers. Structure (2025)

Release Date

2024-11-06

Peptides

Heavy chain of the Fab fragment of anti-IL-6 antibody I9H: A
Light chain of the Fab fragment of anti-IL-6 antibody I9H: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

Heavy chain of the Fab fragment of anti-IL-6 antibody I9H

Light chain of the Fab fragment of anti-IL-6 antibody I9H

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