SMTL ID : 7e2i.1

Cryo-EM structure of hDisp1NNN-ShhN

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: H.134, H.140, D.147, E.176, H.180, H.182 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:H.140, A:D.147, A:D.147, A:E.176, A:H.182

7 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.2: 7 residues within 4Å: Chain B: W.724, S.1026, L.1029, L.1030, C.1117, I.1118 Ligands: Y01.3 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:W.724, B:L.1029, B:L.1030, B:I.1118 Y01.3: 5 residues within 4Å: Chain B: L.1030, T.1110, M.1113, L.1114 Ligands: Y01.2 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:L.1030, B:T.1110 Y01.4: 7 residues within 4Å: Chain B: M.742, E.938, M.988, I.1020, F.1021, L.1034, I.1042 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:M.742, B:E.938, B:F.1021, B:L.1034, B:I.1042 Y01.5: 3 residues within 4Å: Chain B: L.501, T.504, L.560 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.501, B:T.504, B:L.560 Y01.6: 2 residues within 4Å: Chain B: L.193, L.658 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:L.193, B:L.658 Y01.7: 5 residues within 4Å: Chain B: F.550, Y.620, V.635, T.639, L.802 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:F.550, B:F.550, B:F.550, B:Y.620, B:V.635, B:T.639 Y01.8: 6 residues within 4Å: Chain B: Y.181, L.601, Q.602, L.606, F.609, Y.645 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:Y.181, B:Y.181, B:L.601, B:L.606, B:F.609, B:Y.645

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

NAG.9: 3 residues within 4Å: Chain B: N.476, S.477, G.480 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.477 NAG.10: 2 residues within 4Å: Chain B: N.362, N.363 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:N.363 Hydrogen bonds: B:N.363 NAG.11: 1 residues within 4Å: Chain B: N.917 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.917 NAG.12: 1 residues within 4Å: Chain B: N.836 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.836

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

Sonic hedgehog protein: A
Protein dispatched homolog 1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
D

Membrane

We predict this structure to be a membrane protein.
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Sonic hedgehog protein

Protein dispatched homolog 1