SMTL ID : 7e2g.1

Cryo-EM structure of hDisp1NNN-3C

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

monomer

Ligands

11 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.1: 7 residues within 4Å: Chain A: W.715, L.722, S.1020, L.1024, L.1108, F.1119 Ligands: Y01.2 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.715, A:L.722, A:L.1024, A:L.1108, A:F.1119 Y01.2: 7 residues within 4Å: Chain A: L.1024, W.1026, M.1092, T.1104, M.1107 Ligands: Y01.1, Y01.10 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.1024 Y01.3: 11 residues within 4Å: Chain A: K.735, M.736, E.932, S.975, T.978, L.979, M.982, I.1014, V.1018, L.1028 Ligands: Y01.7 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:K.735, A:K.735, A:E.932, A:T.978, A:L.979, A:I.1014, A:V.1018, A:L.1028 Y01.4: 10 residues within 4Å: Chain A: F.216, Q.491, L.495, T.498, P.501, L.554, L.557, I.558, Y.1099 Ligands: Y01.8 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.216, A:L.495, A:T.498, A:P.501, A:L.554, A:I.558 Y01.5: 5 residues within 4Å: Chain A: T.197, F.520, F.527, L.652, R.655 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:T.197, A:F.520, A:F.527, A:L.652 Salt bridges: A:R.655 Y01.6: 5 residues within 4Å: Chain A: F.544, F.546, F.607, Y.614, Y.617 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.544, A:F.546, A:F.607, A:Y.614, A:Y.614, A:Y.617 Y01.7: 4 residues within 4Å: Chain A: K.735, A.1011, F.1015 Ligands: Y01.3 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.1011, A:F.1015 Salt bridges: A:K.735 Y01.8: 3 residues within 4Å: Chain A: L.495, A.502 Ligands: Y01.4 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.495, A:A.502 Y01.9: 5 residues within 4Å: Chain A: Y.181, S.592, I.593, Q.596, T.644 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.181, A:Y.181, A:Y.181, A:Q.596 Y01.10: 5 residues within 4Å: Chain A: R.750, F.1085, M.1107 Ligands: Y01.2, Y01.11 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.1085 Salt bridges: A:R.750 Y01.11: 8 residues within 4Å: Chain A: V.511, R.750, L.1082, V.1086, A.1089, M.1090, P.1093 Ligands: Y01.10 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.511, A:L.1082, A:V.1086, A:A.1089, A:P.1093 Salt bridges: A:R.750

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

NAG.12: 1 residues within 4Å: Chain A: N.830 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.830 NAG.13: 2 residues within 4Å: Chain A: N.470, D.473 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.470 NAG.14: 1 residues within 4Å: Chain A: N.357 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:N.357 NAG.15: 1 residues within 4Å: Chain A: N.911 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, W. et al., Structural insights into proteolytic activation of the human Dispatched1 transporter for Hedgehog morphogen release. Nat Commun (2021)

Release Date

2021-12-08

Peptides

Protein dispatched homolog 1,Protein dispatched homolog 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

Membrane

We predict this structure to be a membrane protein.
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Protein dispatched homolog 1,Protein dispatched homolog 1