SMTL ID : 7xjf.1

Crystal structure of 6MW3211 Fab in complex with CD47

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUC.1: 7 residues within 4Å: Chain C: E.11, F.12, T.13, N.16, T.18, V.19, V.20 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:T.13

2 x NAG- FUC: alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-FUC.2: 5 residues within 4Å: Chain A: F.102 Chain B: Y.49, S.56 Chain C: Q.31, N.32 6 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A, 1 interactions with chain C Hydrogen bonds: B:S.56, B:S.56, C:N.32 Water bridges: B:Y.49, B:S.56 Hydrophobic interactions: A:F.102 NAG-FUC.3: 2 residues within 4Å: Chain C: N.55, S.57 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:S.57, C:N.55

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 2 residues within 4Å: Chain A: H.175 Chain B: E.165 Ligand excluded by PLIP CL.5: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

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

NAG.6: 3 residues within 4Å: Chain C: G.92, N.93, E.110 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:E.110, C:E.110

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, R. et al., Blockade of dual immune checkpoint inhibitory signals with a CD47/PD-L1 bispecific antibody for cancer treatment. Theranostics (2023)

Release Date

2023-05-31

Peptides

Heavy chain of 6MW3211 Fab: A
Light chain of 6MW3211 Fab: B
Leukocyte surface antigen CD47: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Heavy chain of 6MW3211 Fab

Light chain of 6MW3211 Fab

Leukocyte surface antigen CD47