SMTL ID : 3c09.2 (1 other biounit)

Crystal structure the Fab fragment of matuzumab (Fab72000) in complex with domain III of the extracellular region of EGFR

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

hetero-1-1-1-mer

Ligands

6 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)(Non-functional Binders)

NAG.1: 12 residues within 4Å: Chain A: E.14, D.17, S.18, L.19, S.20, N.22, N.25, V.44, D.49, T.52, T.54 Ligands: NAG.2 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.19, A:V.44, A:D.49 Hydrogen bonds: A:E.14, A:L.19, A:S.20, A:N.22, A:N.25, A:T.52, A:T.52, A:T.54 NAG.2: 3 residues within 4Å: Chain A: D.17 Ligands: NAG.1, BMA.3 No protein-ligand interaction detected (PLIP) NAG.5: 2 residues within 4Å: Chain A: K.30, N.31 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:K.30 Hydrogen bonds: A:N.31 NAG.6: 1 residues within 4Å: Chain A: N.83 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.83 NAG.7: 5 residues within 4Å: Chain A: E.82, N.83, N.114, N.138 Ligands: NAG.8 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:E.82 Hydrogen bonds: A:N.114, A:N.138 NAG.8: 1 residues within 4Å: Ligands: NAG.7 No protein-ligand interaction detected (PLIP)

1 x BMA: beta-D-mannopyranose(Non-functional Binders)

BMA.3: 2 residues within 4Å: Ligands: NAG.2, MAN.4 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.17

1 x MAN: alpha-D-mannopyranose(Non-covalent)

MAN.4: 2 residues within 4Å: Chain A: D.17 Ligands: BMA.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.17

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schmiedel, J. et al., Matuzumab binding to EGFR prevents the conformational rearrangement required for dimerization. Cancer Cell (2008)

Release Date

2008-04-15

Peptides

Epidermal growth factor receptor: A
Matuzumab Fab Light chain: B
Matuzumab Fab Heavy chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Epidermal growth factor receptor

Matuzumab Fab Light chain

Matuzumab Fab Heavy chain

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