SMTL ID : 7n16.1

Structure of TAX-4_R421W apo closed state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

16 x CPL: 1-PALMITOYL-2-LINOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)

CPL.1: 10 residues within 4Å: Chain A: D.152, L.153, P.156, E.176, C.177, Y.179, Y.202, F.205, L.364 Ligands: CPL.3 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.205, A:F.205 pi-Cation interactions: A:Y.179 CPL.2: 6 residues within 4Å: Chain A: Y.137, I.138, V.295, W.319, Y.320, I.323 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.137, A:I.138, A:W.319, A:Y.320, A:I.323 CPL.3: 6 residues within 4Å: Chain A: Y.179, T.363, L.364, L.365, Y.368 Ligands: CPL.1 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.364, A:L.365, A:Y.368 CPL.4: 3 residues within 4Å: Chain A: W.338, R.390, I.392 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.390 CPL.5: 3 residues within 4Å: Chain B: W.338, R.390, I.392 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.390 CPL.6: 10 residues within 4Å: Chain B: D.152, L.153, P.156, E.176, C.177, Y.179, Y.202, F.205, L.364 Ligands: CPL.8 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:F.205, B:F.205 pi-Cation interactions: B:Y.179 CPL.7: 6 residues within 4Å: Chain B: Y.137, I.138, V.295, W.319, Y.320, I.323 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:Y.137, B:I.138, B:W.319, B:Y.320, B:I.323 CPL.8: 6 residues within 4Å: Chain B: Y.179, T.363, L.364, L.365, Y.368 Ligands: CPL.6 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.364, B:L.365, B:Y.368 CPL.10: 3 residues within 4Å: Chain C: W.338, R.390, I.392 1 PLIP interactions: 1 interactions with chain C Salt bridges: C:R.390 CPL.11: 10 residues within 4Å: Chain C: D.152, L.153, P.156, E.176, C.177, Y.179, Y.202, F.205, L.364 Ligands: CPL.13 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:F.205, C:F.205 pi-Cation interactions: C:Y.179 CPL.12: 6 residues within 4Å: Chain C: Y.137, I.138, V.295, W.319, Y.320, I.323 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:Y.137, C:I.138, C:W.319, C:Y.320, C:I.323 CPL.13: 6 residues within 4Å: Chain C: Y.179, T.363, L.364, L.365, Y.368 Ligands: CPL.11 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:L.364, C:L.365, C:Y.368 CPL.14: 3 residues within 4Å: Chain D: W.338, R.390, I.392 1 PLIP interactions: 1 interactions with chain D Salt bridges: D:R.390 CPL.15: 10 residues within 4Å: Chain D: D.152, L.153, P.156, E.176, C.177, Y.179, Y.202, F.205, L.364 Ligands: CPL.17 3 PLIP interactions: 3 interactions with chain D Hydrophobic interactions: D:F.205, D:F.205 pi-Cation interactions: D:Y.179 CPL.16: 6 residues within 4Å: Chain D: Y.137, I.138, V.295, W.319, Y.320, I.323 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:Y.137, D:I.138, D:W.319, D:Y.320, D:I.323 CPL.17: 6 residues within 4Å: Chain D: Y.179, T.363, L.364, L.365, Y.368 Ligands: CPL.15 3 PLIP interactions: 3 interactions with chain D Hydrophobic interactions: D:L.364, D:L.365, D:Y.368

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

NA.9: 4 residues within 4Å: Chain A: E.384 Chain B: E.384 Chain C: E.384 Chain D: E.384 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.384

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zheng, X. et al., Structural and functional characterization of an achromatopsia-associated mutation in a phototransduction channel. Commun Biol (2022)

Release Date

2022-03-16

Peptides

Cyclic nucleotide-gated cation channel: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
A

C
B

D
C

Membrane

We predict this structure to be a membrane protein.
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Cyclic nucleotide-gated cation channel

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