SMTL ID : 6y92.1

Structure of full-length CD20 in complex with Ofatumumab Fab

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-2-mer

Ligands

6 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)(Covalent)

Y01.1: 6 residues within 4Å: Chain A: S.148, L.151, G.152, S.155 Chain F: I.24 Ligands: Y01.6 2 PLIP interactions: 1 interactions with chain F, 1 interactions with chain A Hydrophobic interactions: F:I.24, A:L.151 Y01.2: 5 residues within 4Å: Chain A: G.27, G.28, L.29, M.31 Ligands: Y01.4 No protein-ligand interaction detected (PLIP) Y01.3: 5 residues within 4Å: Chain A: T.11, F.163 Chain F: K.10, A.14, I.17 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain F Hydrophobic interactions: A:F.163, F:I.17 Y01.4: 7 residues within 4Å: Chain A: I.32 Chain F: Y.144, S.148, L.151, G.152, S.155 Ligands: Y01.2 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain F Hydrophobic interactions: A:I.32 Salt bridges: F:K.102 Y01.5: 2 residues within 4Å: Chain A: A.14 Chain F: F.163 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain F Hydrophobic interactions: A:A.14, F:F.163, F:F.163 Y01.6: 5 residues within 4Å: Chain F: G.28, M.31, F.114, H.118 Ligands: Y01.1 3 PLIP interactions: 3 interactions with chain F Hydrophobic interactions: F:M.31, F:F.114 Salt bridges: F:H.118

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumar, A. et al., Binding mechanisms of therapeutic antibodies to human CD20. Science (2020)

Release Date

2020-08-26

Peptides

B-lymphocyte antigen CD20: AF
Ofatumumab Fab light chain: BE
Ofatumumab Fab heavy chain: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

F
B

B
D

E
L

C
C

D
H

Membrane

We predict this structure to be a membrane protein.
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B-lymphocyte antigen CD20

Ofatumumab Fab light chain

Ofatumumab Fab heavy chain

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