SMTL ID : 9eq6.1

Cachd1 and FZD5 complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.72 Å

Oligo State

hetero-1-1-mer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: E.12, G.22, N.24 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.22 NAG.2: 3 residues within 4Å: Chain B: F.385, L.386, N.387 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:L.386 NAG.3: 1 residues within 4Å: Chain B: N.582 No protein-ligand interaction detected (PLIP) NAG.4: 5 residues within 4Å: Chain B: T.578, A.599, Y.600, N.601, E.624 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:T.578, B:A.599 Hydrogen bonds: B:E.624 NAG.5: 5 residues within 4Å: Chain B: N.897, N.919, S.921, L.922, V.923 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.922, B:V.923 Hydrogen bonds: B:N.919 NAG.6: 6 residues within 4Å: Chain B: F.53, V.841, Q.844, I.850, N.954, T.956 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:V.841, B:I.850 Hydrogen bonds: B:F.53 NAG.7: 2 residues within 4Å: Chain B: T.997, N.999 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.997

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.8: 4 residues within 4Å: Chain B: R.645, P.686, E.687, K.764 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.687 Salt bridges: B:R.645, B:K.764

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhao, Y. et al., Cachd1 is a Frizzled- and LRP6-interacting protein required for neurons to acquire left-right asymmetric character. To Be Published

Release Date

2025-04-02

Peptides

Frizzled-5: A
VWFA and cache domain-containing protein 1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Frizzled-5

VWFA and cache domain-containing protein 1

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