SMTL ID : 8s7c.3 (2 other biounits)

Ternary Complex of Cachd1, FZD5 and LRP6

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 4.70 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 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: 8 residues within 4Å: Chain C: V.378, V.379, W.405, N.414, T.416, S.422, G.424, V.425 No protein-ligand interaction detected (PLIP)

10 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)(Post Translational Modification)

NAG.2: 2 residues within 4Å: Chain A: N.387, S.389 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.389 NAG.3: 2 residues within 4Å: Chain A: N.582, E.598 No protein-ligand interaction detected (PLIP) NAG.4: 5 residues within 4Å: Chain A: K.597, A.599, Y.600, N.601, E.624 No protein-ligand interaction detected (PLIP) NAG.5: 3 residues within 4Å: Chain A: N.897, N.919, L.922 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.922 Hydrogen bonds: A:N.897 NAG.6: 2 residues within 4Å: Chain A: N.954, T.956 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.937, A:N.954 NAG.7: 2 residues within 4Å: Chain A: T.997, N.999 No protein-ligand interaction detected (PLIP) NAG.8: 2 residues within 4Å: Chain B: R.19, N.24 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.19, B:R.19 NAG.9: 5 residues within 4Å: Chain C: D.48, N.49, F.65, N.67, S.69 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.69, C:S.69 NAG.10: 4 residues within 4Å: Chain C: N.234, T.236, S.237, N.240 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.237, C:N.240 NAG.11: 3 residues within 4Å: Chain C: A.299, D.300, N.301 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:A.299

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Powell, G.T. et al., Cachd1 interacts with Wnt receptors and regulates neuronal asymmetry in the zebrafish brain. Science (2024)

Release Date

2024-04-24

Peptides

VWFA and cache domain-containing protein 1: A
Frizzled-5: B
Low-density lipoprotein receptor-related protein 6: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
H

C
I

VWFA and cache domain-containing protein 1

Frizzled-5

Low-density lipoprotein receptor-related protein 6

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