SMTL ID : 9i1q.2 (4 other biounits)

HER3 receptor in complex with the Fab fragment of TK-hu A3 monoclonal antibody

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-dimer

Ligands

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.1: 6 residues within 4Å: Chain A: H.386, M.387, H.388, N.389, S.421, P.493 No protein-ligand interaction detected (PLIP)

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

NAG.2: 6 residues within 4Å: Chain A: Q.7, C.224, F.225, C.227, N.231, C.236 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.7, A:N.231 NAG.3: 2 residues within 4Å: Chain A: G.306, N.334 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.306, A:N.334 NAG.4: 7 residues within 4Å: Chain A: P.385, H.386, H.388, N.418, R.441, Q.442 Chain B: D.93 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.418, A:R.441 NAG.5: 2 residues within 4Å: Chain A: N.450, K.453 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.453 NAG.6: 2 residues within 4Å: Chain A: H.595, N.597 No protein-ligand interaction detected (PLIP) NAG.7: 1 residues within 4Å: Chain A: N.547 No protein-ligand interaction detected (PLIP) NAG.8: 3 residues within 4Å: Chain A: R.369, R.372, N.395 No protein-ligand interaction detected (PLIP) NAG.12: 6 residues within 4Å: Chain B: C.224, F.225, A.226, C.227, N.231, C.236 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.231 NAG.13: 6 residues within 4Å: Chain B: L.307, R.369, R.372, S.394, N.395, R.425 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:L.307 Hydrogen bonds: B:R.369, B:S.394, B:R.425, B:R.425 NAG.14: 5 residues within 4Å: Chain B: P.385, H.386, H.388, N.418, Q.442 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:H.386 Hydrogen bonds: B:N.418 NAG.15: 4 residues within 4Å: Chain B: N.450, T.452, K.453, S.487 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.452, B:S.487 NAG.16: 2 residues within 4Å: Chain B: N.503, Y.504 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:Y.504 NAG.17: 2 residues within 4Å: Chain B: G.306, N.334 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.306, B:N.334

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

SCN.9: 5 residues within 4Å: Chain A: K.248, I.581, Y.582, K.583, P.593 No protein-ligand interaction detected (PLIP) SCN.10: 3 residues within 4Å: Chain A: T.250, P.564, H.565 No protein-ligand interaction detected (PLIP) SCN.18: 1 residues within 4Å: Chain B: A.555 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.11: 5 residues within 4Å: Chain B: H.386, H.388, N.389, S.421, P.493 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Muzi, A. et al., Novel Humanized Anti-HER3 Antibodies: Structural Characterization and Therapeutic Activity. Antibodies (2025)

Release Date

2025-10-15

Peptides

Receptor tyrosine-protein kinase erbB-3: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
B

Receptor tyrosine-protein kinase erbB-3

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