SMTL ID : 6tcp.1 (3 other biounits)

Crystal structure of the omalizumab Fab Leu158Pro light chain mutant - crystal form II

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-1-1-mer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: Q.41, K.43, K.49 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.41 Water bridges: A:K.49 Salt bridges: A:K.43, A:K.49 SO4.7: 3 residues within 4Å: Chain B: S.100, H.101, Y.102 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:R.98, B:H.101, B:Y.102 Water bridges: B:S.100, B:S.100, B:S.100, B:H.107 SO4.8: 2 residues within 4Å: Chain B: Y.27, R.98 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Y.27 Water bridges: B:R.98, B:R.98 Salt bridges: B:R.98

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 1 residues within 4Å: Chain A: R.215 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.215, A:R.215 GOL.3: 4 residues within 4Å: Chain A: P.63, R.65, E.85 Ligands: GOL.6 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.65 GOL.4: 12 residues within 4Å: Chain A: Q.164, E.165, S.166, S.180, S.181, T.182 Chain B: F.174, P.175, V.177, S.185, L.186, S.187 7 PLIP interactions: 3 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:P.175, B:S.187, B:S.187, A:Q.164, A:S.180, A:T.182, A:T.182 GOL.6: 4 residues within 4Å: Chain A: R.65, Q.83, E.85 Ligands: GOL.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.85

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.5: 2 residues within 4Å: Chain A: G.161, S.163 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.161, A:S.163, A:S.163

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mitropoulou, A.N. et al., Engineering the Fab fragment of the anti-IgE omalizumab to prevent Fab crystallization and permit IgE-Fc complex crystallization. Acta Crystallogr.,Sect.F (2020)

Release Date

2020-03-18

Peptides

Omalizumab Fab Leu158Pro light chain mutant: A
Omalizumab Fab Leu158Pro light chain mutant: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

Omalizumab Fab Leu158Pro light chain mutant

Omalizumab Fab Leu158Pro light chain mutant

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