SMTL ID : 7pkl.1

Mechanistic understanding of antibody masking with anti-idiotypic antibody fragments

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

hetero-1-1-mer

Ligands

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

SO4.1: 5 residues within 4Å: Chain B: R.38, K.46, T.61, S.63 Ligands: SO4.3 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.63, B:S.63 Water bridges: B:R.38, B:R.38 Salt bridges: B:R.38, B:K.46 SO4.2: 2 residues within 4Å: Chain B: P.213, S.214 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.214 SO4.3: 5 residues within 4Å: Chain A: D.102 Chain B: R.45, K.46, F.47 Ligands: SO4.1 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:F.47, A:D.102 Water bridges: B:H.107, A:D.102, A:D.102 SO4.4: 7 residues within 4Å: Chain A: G.103, F.104, Y.105 Chain B: T.185, A.186, S.204, H.245 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:G.103, A:Y.105 Water bridges: B:S.204 Salt bridges: B:H.245

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Orozco, C.T. et al., Mechanistic insights into the rational design of masked antibodies. Mabs

Release Date

2022-09-07

Peptides

trastuzumab Heavy Chain: A
trastuzumab Light Chain VHH fusion: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

trastuzumab Heavy Chain

trastuzumab Light Chain VHH fusion