SMTL ID : 6rtw.1

Crystal structure of the Patched-1 (PTCH1) ectodomain in complex with nanobody NB64 and cholesterol-hemisuccinate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-1-1-mer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: A.171, A.173, N.177 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.171 NAG.2: 7 residues within 4Å: Chain A: L.186, N.214, S.215, T.216, K.218, L.219, V.220 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.216, A:T.216 Water bridges: A:N.214, A:N.214 NAG.3: 3 residues within 4Å: Chain A: A.277, Q.278, N.279 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.278, A:N.279

1 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.4: 15 residues within 4Å: Chain A: Y.80, I.84, I.85, L.88, Y.89, P.90, Y.112, L.113, L.114, L.119, F.124, W.143, M.146, L.147, A.150 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:I.84, A:L.88, A:L.88, A:L.113, A:L.119, A:F.124, A:W.143, A:W.143, A:L.147, A:A.150 Hydrogen bonds: A:Y.80, A:Y.112, A:L.114

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rudolf, A.F. et al., The morphogen Sonic hedgehog inhibits its receptor Patched by a pincer grasp mechanism. Nat.Chem.Biol. (2019)

Release Date

2019-10-02

Peptides

Protein patched homolog 1: A
Llama-derived nanobody NB64: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protein patched homolog 1

Llama-derived nanobody NB64

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