SMTL ID : 7usy.1

Structure of C. elegans TMC-1 complex with ARRD-6

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY 3.54 Å

Oligo State

hetero-2-2-2-1-mer

Ligands

8 x CA: CALCIUM ION(Non-covalent)

CA.1: 2 residues within 4Å: Chain A: D.695, N.772 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.695, A:D.695 CA.2: 3 residues within 4Å: Chain A: D.683, T.687, L.760 No protein-ligand interaction detected (PLIP) CA.6: 3 residues within 4Å: Chain B: D.695, R.764, N.772 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.695 CA.7: 3 residues within 4Å: Chain B: T.403, D.683, N.734 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.683 CA.11: 5 residues within 4Å: Chain C: D.132, D.134, L.136, G.138, D.141 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:D.132, C:D.132, C:D.134, C:L.136, C:D.141 CA.12: 4 residues within 4Å: Chain C: D.171, L.172, S.177, E.182 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:D.171, C:S.177, C:E.182, C:E.182 CA.15: 7 residues within 4Å: Chain E: D.130, D.132, G.133, D.134, E.135, L.136, D.141 3 PLIP interactions: 3 interactions with chain E Metal complexes: E:D.132, E:D.134, E:L.136 CA.16: 2 residues within 4Å: Chain E: D.171, S.177 1 PLIP interactions: 1 interactions with chain E Metal complexes: E:S.177

2 x PEE: 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine(Non-covalent)

PEE.3: 9 residues within 4Å: Chain A: K.146, Y.148, L.149, I.150, P.151, R.175, W.176, F.179, F.279 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:K.146, A:P.151, A:F.179, A:F.279 Salt bridges: A:R.175 PEE.8: 8 residues within 4Å: Chain B: F.142, K.146, I.150, P.151, T.172, R.175, F.179, K.284 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:F.142, B:K.146, B:I.150, B:P.151, B:P.151, B:F.179 Hydrogen bonds: B:T.172, B:R.175 Salt bridges: B:R.175, B:R.175, B:K.284

2 x 3PE: 1,2-Distearoyl-sn-glycerophosphoethanolamine(Non-covalent)

3PE.4: 12 residues within 4Å: Chain A: I.688, L.692, I.759, Y.762, W.766 Chain D: L.36, I.39, V.40, C.43, C.44 Ligands: PLM.13, PLM.14 8 PLIP interactions: 5 interactions with chain A, 3 interactions with chain D Hydrophobic interactions: A:I.688, A:L.692, A:L.692, A:I.759, D:L.36, D:I.39 Salt bridges: A:K.155 Hydrogen bonds: D:C.44 3PE.9: 11 residues within 4Å: Chain B: K.155, I.685, I.688, L.692, Y.762, I.763, W.766 Chain F: L.36, C.44 Ligands: PLM.17, PLM.18 9 PLIP interactions: 3 interactions with chain F, 6 interactions with chain B Hydrophobic interactions: F:L.36, F:L.36, B:I.685, B:I.688, B:L.692, B:I.763, B:W.766 Hydrogen bonds: F:C.44 Salt bridges: B:K.155

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

NAG.5: 2 residues within 4Å: Chain A: N.209, K.212 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:N.209 Hydrogen bonds: A:N.209, A:N.209, A:K.212 NAG.10: 2 residues within 4Å: Chain B: E.205, N.209 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:N.209 Hydrogen bonds: B:N.209

4 x PLM: PALMITIC ACID(Covalent)(Non-covalent)

PLM.13: 4 residues within 4Å: Chain A: I.755, I.759 Chain D: C.44 Ligands: 3PE.4 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.755, A:I.759 PLM.14: 6 residues within 4Å: Chain A: L.692, L.696, F.697 Chain D: I.39, C.43 Ligands: 3PE.4 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.692, A:L.696, A:F.697 PLM.17: 7 residues within 4Å: Chain B: I.758, I.759, Y.762 Chain F: I.41, C.44, F.45 Ligands: 3PE.9 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:I.758, B:I.759, B:Y.762 PLM.18: 7 residues within 4Å: Chain B: L.692, L.696, W.766 Chain F: I.39, C.43, I.48 Ligands: 3PE.9 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain F Hydrophobic interactions: B:L.692, B:W.766, F:I.39, F:I.48

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jeong, H. et al., Structures of the TMC-1 complex illuminate mechanosensory transduction. Nature (2022)

Release Date

2022-10-19

Peptides

Transmembrane channel-like protein 1: AB
CALMyrin (Calcium and Integrin Binding protein) homolog: CE
Transmembrane inner ear expressed protein: DF
ARRestin Domain protein: G

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

E
E

D
D

F
F

G
J

Membrane

We predict this structure to be a membrane protein.
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Transmembrane channel-like protein 1

CALMyrin (Calcium and Integrin Binding protein) homolog

Transmembrane inner ear expressed protein

ARRestin Domain protein

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