SMTL ID : 5l7i.2 (1 other biounit)

Structure of human Smoothened in complex with Vismodegib

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.30 Å

Oligo State

monomer

Ligands

1 x NA: SODIUM ION(Non-functional Binders)

NA.1: 6 residues within 4Å: Chain A: T.59, L.60, A.62, G.63, S.65, D.66 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.63

1 x VIS: 2-chloranyl-~{N}-(4-chloranyl-3-pyridin-2-yl-phenyl)-4-methylsulfonyl-benzamide(Non-covalent)

VIS.2: 14 residues within 4Å: Chain A: L.190, W.250, D.353, S.356, Y.363, R.369, D.546, Q.550, W.553, P.586, E.591, N.594, L.595, M.598 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.250, A:Y.363 Hydrogen bonds: A:D.353 pi-Cation interactions: A:R.369

2 x MPG: [(Z)-octadec-9-enyl] (2R)-2,3-bis(oxidanyl)propanoate(Non-covalent)

MPG.3: 5 residues within 4Å: Chain A: P.275, L.281, I.285, L.345, A.346 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.275, A:L.281 MPG.4: 5 residues within 4Å: Chain A: W.225, Y.238, Y.292, H.330, W.334 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.292, A:W.334

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Byrne, E.F. et al., Structural basis of Smoothened regulation by its extracellular domains. Nature (2016)

Release Date

2016-07-20

Peptides

Smoothened homolog,Soluble cytochrome b562,Smoothened homolog: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Membrane

We predict this structure to be a membrane protein.
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Smoothened homolog,Soluble cytochrome b562,Smoothened homolog

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