SMTL ID : 5tz2.1

Crystal structure of human CD47 ECD bound to Fab of C47B222

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-1-1-1-mer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 1 residues within 4Å: Chain C: N.55 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 2 residues within 4Å: Chain C: N.93, E.110 No protein-ligand interaction detected (PLIP)

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 12 residues within 4Å: Chain A: F.173, P.174, A.175, V.176, S.184, L.185, S.186 Chain B: Q.160, S.162, S.176, S.177, T.178 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.162, B:S.162, B:S.176, B:T.178, B:T.178, A:S.184, A:S.186

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

NAG.4: 2 residues within 4Å: Chain C: N.5, F.24 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:F.24 NAG.5: 5 residues within 4Å: Chain C: E.11, F.12, N.16, V.19, V.20 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:F.12, C:V.19 Hydrogen bonds: C:E.11, C:N.16, C:V.20 Water bridges: C:E.11 NAG.6: 1 residues within 4Å: Chain C: N.32 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.32

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pietsch, E.C. et al., Anti-leukemic activity and tolerability of anti-human CD47 monoclonal antibodies. Blood Cancer J (2017)

Release Date

2017-03-15

Peptides

C47B222 Fab Heavy Chain: A
C47B222 Fab Light Chain: B
Leukocyte surface antigen CD47: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

C
C

C47B222 Fab Heavy Chain

C47B222 Fab Light Chain

Leukocyte surface antigen CD47

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