SMTL ID : 9i1q.1 (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

hetero-2-1-1-mer

Ligands

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.1: 5 residues within 4Å: Chain A: G.305, G.306, R.369, T.370, N.395 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.305

1 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN.2: 6 residues within 4Å: Chain A: H.386, M.387, H.388, N.389, P.493, Q.497 No protein-ligand interaction detected (PLIP)

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: 3 residues within 4Å: Chain B: H.386, H.388, N.389 No protein-ligand interaction detected (PLIP)

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

NAG.4: 8 residues within 4Å: Chain A: V.39, R.62, E.63, F.225, A.226, C.227, N.231, G.234 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.39 Hydrogen bonds: A:R.62, A:C.227 NAG.5: 5 residues within 4Å: Chain A: P.385, H.386, H.388, N.418, Q.442 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:H.386 Hydrogen bonds: A:N.418, A:Q.442 NAG.6: 4 residues within 4Å: Chain A: N.450, T.452, K.453, S.487 No protein-ligand interaction detected (PLIP) NAG.7: 1 residues within 4Å: Chain A: N.334 No protein-ligand interaction detected (PLIP) NAG.8: 3 residues within 4Å: Chain A: H.595, E.596, N.597 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:E.596 Hydrogen bonds: A:E.596 NAG.9: 3 residues within 4Å: Chain A: N.547, D.552, T.553 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.547 NAG.10: 7 residues within 4Å: Chain B: A.8, E.38, C.224, F.225, C.227, N.231, G.234 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.38, B:N.231, B:G.234 NAG.11: 1 residues within 4Å: Chain B: N.334 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.334 NAG.12: 4 residues within 4Å: Chain B: R.369, T.370, N.395, R.425 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.369, B:R.425 NAG.13: 3 residues within 4Å: Chain B: P.385, H.388, N.418 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.418 NAG.14: 3 residues within 4Å: Chain B: N.450, K.453, S.487 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.450, B:S.487

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

SCN.15: 4 residues within 4Å: Chain B: D.146, T.187, K.188, T.189 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.189

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
light chain hA3-Fab: C
heavy chain hA3-Fab: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

C
E

D
J

Receptor tyrosine-protein kinase erbB-3

light chain hA3-Fab

heavy chain hA3-Fab

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