SMTL ID : 7myz.1 (1 other biounit)

Structure of the full length 5-TM receptor CD47 bound to Fab B6H12

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.40 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

NAG.1: 5 residues within 4Å: Chain A: E.11, F.12, N.16, V.19, V.20 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.12, A:V.19 NAG.2: 1 residues within 4Å: Chain A: N.55 No protein-ligand interaction detected (PLIP) NAG.3: 5 residues within 4Å: Chain A: Q.31, N.32, L.74 Chain B: T.28, G.31 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.74 NAG.4: 3 residues within 4Å: Chain A: G.92, N.93, E.110 No protein-ligand interaction detected (PLIP)

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 4 residues within 4Å: Chain B: K.43 Chain C: Q.38, S.40, V.85 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:Q.38

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fenalti, G. et al., Structure of the human marker of self 5-transmembrane receptor CD47. Nat Commun (2021)

Release Date

2021-09-08

Peptides

Fusion protein of Leukocyte surface antigen CD47 an Soluble cytochrome b562: A
B6H12 Fab heavy chain: B
B6H12 Fab light chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
H

C
L

Membrane

We predict this structure to be a membrane protein.
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Fusion protein of Leukocyte surface antigen CD47 an Soluble cytochrome b562

B6H12 Fab heavy chain

B6H12 Fab light chain

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