SMTL ID : 7dxc.1

Structure of TRPC3 at 3.06 angstrom in low calcium state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

8 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.1: 11 residues within 4Å: Chain A: Y.323, I.334, K.337, F.371, I.382, I.541, I.544, A.547, N.548 Chain B: M.574, F.577 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:I.382, A:I.541, A:I.544, A:A.547, B:F.577 Salt bridges: A:K.337 Y01.3: 8 residues within 4Å: Chain A: M.437, A.470, T.473, A.474, L.477, S.520, I.525 Ligands: POV.6 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:A.470, A:T.473, A:A.474, A:L.477, A:I.525 Y01.7: 11 residues within 4Å: Chain B: Y.323, I.334, K.337, F.371, I.382, I.541, I.544, A.547, N.548 Chain D: M.574, F.577 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain D Hydrophobic interactions: B:I.382, B:I.541, B:I.544, B:A.547, D:F.577 Salt bridges: B:K.337 Y01.9: 8 residues within 4Å: Chain B: M.437, A.470, T.473, A.474, L.477, S.520, I.525 Ligands: POV.16 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:A.470, B:T.473, B:A.474, B:L.477, B:I.525 Y01.11: 11 residues within 4Å: Chain A: M.574, F.577 Chain C: Y.323, I.334, K.337, F.371, I.382, I.541, I.544, A.547, N.548 6 PLIP interactions: 1 interactions with chain A, 5 interactions with chain C Hydrophobic interactions: A:F.577, C:I.382, C:I.541, C:I.544, C:A.547 Salt bridges: C:K.337 Y01.13: 8 residues within 4Å: Chain C: M.437, A.470, T.473, A.474, L.477, S.520, I.525 Ligands: POV.5 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:A.470, C:T.473, C:A.474, C:L.477, C:I.525 Y01.17: 11 residues within 4Å: Chain C: M.574, F.577 Chain D: Y.323, I.334, K.337, F.371, I.382, I.541, I.544, A.547, N.548 6 PLIP interactions: 5 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:I.382, D:I.541, D:I.544, D:A.547, C:F.577 Salt bridges: D:K.337 Y01.19: 8 residues within 4Å: Chain D: M.437, A.470, T.473, A.474, L.477, S.520, I.525 Ligands: POV.15 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:A.470, D:T.473, D:A.474, D:L.477, D:I.525

4 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: H.178, C.182, C.184, C.187 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.178, A:C.182, A:C.184, A:C.187 ZN.8: 4 residues within 4Å: Chain B: H.178, C.182, C.184, C.187 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.178, B:C.182, B:C.184, B:C.187 ZN.12: 4 residues within 4Å: Chain C: H.178, C.182, C.184, C.187 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.178, C:C.182, C:C.184, C:C.187 ZN.18: 4 residues within 4Å: Chain D: H.178, C.182, C.184, C.187 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:H.178, D:C.182, D:C.184, D:C.187

4 x 98R: [(2S)-2-[(E)-octadec-10-enoyl]oxy-3-oxidanyl-propyl] octadec-10-enoate(Non-covalent)

98R.4: 10 residues within 4Å: Chain A: F.606, K.607, F.610, W.611 Chain B: N.633, Y.636, I.641, V.644, T.645 Ligands: POV.6 11 PLIP interactions: 6 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:F.606, A:F.606, A:F.610, A:F.610, A:F.610, B:I.641, B:V.644, B:V.644, B:T.645 Hydrogen bonds: A:K.607, B:N.633 98R.10: 10 residues within 4Å: Chain B: F.606, K.607, F.610, W.611 Chain D: N.633, Y.636, I.641, V.644, T.645 Ligands: POV.16 11 PLIP interactions: 5 interactions with chain D, 6 interactions with chain B Hydrophobic interactions: D:I.641, D:V.644, D:V.644, D:T.645, B:F.606, B:F.606, B:F.610, B:F.610, B:F.610 Hydrogen bonds: D:N.633, B:K.607 98R.14: 10 residues within 4Å: Chain A: N.633, Y.636, I.641, V.644, T.645 Chain C: F.606, K.607, F.610, W.611 Ligands: POV.5 11 PLIP interactions: 5 interactions with chain A, 6 interactions with chain C Hydrophobic interactions: A:I.641, A:V.644, A:V.644, A:T.645, C:F.606, C:F.606, C:F.610, C:F.610, C:F.610 Hydrogen bonds: A:N.633, C:K.607 98R.20: 10 residues within 4Å: Chain C: N.633, Y.636, I.641, V.644, T.645 Chain D: F.606, K.607, F.610, W.611 Ligands: POV.15 11 PLIP interactions: 6 interactions with chain D, 5 interactions with chain C Hydrophobic interactions: D:F.606, D:F.606, D:F.610, D:F.610, D:F.610, C:I.641, C:V.644, C:V.644, C:T.645 Hydrogen bonds: D:K.607, C:N.633

4 x POV: (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate(Non-covalent)

POV.5: 13 residues within 4Å: Chain A: D.627, K.629, F.630, N.633, I.634 Chain C: S.466, A.470, P.519, I.525, L.529, I.532 Ligands: Y01.13, 98R.14 7 PLIP interactions: 3 interactions with chain A, 4 interactions with chain C Hydrophobic interactions: A:K.629, A:N.633, A:I.634, C:A.470, C:I.525, C:I.525, C:L.529 POV.6: 13 residues within 4Å: Chain A: S.466, A.470, P.519, I.525, L.529, I.532 Chain B: D.627, K.629, F.630, N.633, I.634 Ligands: Y01.3, 98R.4 7 PLIP interactions: 3 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:K.629, B:N.633, B:I.634, A:A.470, A:I.525, A:I.525, A:L.529 POV.15: 13 residues within 4Å: Chain C: D.627, K.629, F.630, N.633, I.634 Chain D: S.466, A.470, P.519, I.525, L.529, I.532 Ligands: Y01.19, 98R.20 7 PLIP interactions: 3 interactions with chain C, 4 interactions with chain D Hydrophobic interactions: C:K.629, C:N.633, C:I.634, D:A.470, D:I.525, D:I.525, D:L.529 POV.16: 13 residues within 4Å: Chain B: S.466, A.470, P.519, I.525, L.529, I.532 Chain D: D.627, K.629, F.630, N.633, I.634 Ligands: Y01.9, 98R.10 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain D Hydrophobic interactions: B:A.470, B:I.525, B:I.525, B:L.529, D:K.629, D:N.633, D:I.634

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guo, W. et al., Structural mechanism of human TRPC3 and TRPC6 channel regulation by their intracellular calcium-binding sites. Neuron (2022)

Release Date

2022-02-02

Peptides

Short transient receptor potential channel 3: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Membrane

We predict this structure to be a membrane protein.
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Short transient receptor potential channel 3

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