- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY 3.37 Å
- Oligo State
- homo-tetramer
- Ligands
- 8 x LBN: 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine(Non-covalent)
- 12 x 6OU: [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate(Non-covalent)
6OU.2: 6 residues within 4Å:- Chain A: M.581, L.588, Y.631, C.634
- Chain D: L.664
- Ligands: 6OU.3
3 PLIP interactions:1 interactions with chain D, 2 interactions with chain A- Hydrophobic interactions: D:L.664, A:L.588, A:Y.631
6OU.3: 10 residues within 4Å:- Chain A: F.589, L.630
- Chain B: I.446, T.449, A.450, Y.453, Y.454, W.549
- Ligands: 6OU.2, YFP.12
4 PLIP interactions:4 interactions with chain B- Hydrophobic interactions: B:I.446, B:W.549
- Hydrogen bonds: B:Y.454, B:Y.454
6OU.4: 5 residues within 4Å:- Chain A: C.578, R.579, F.582
- Chain B: Q.561
- Ligands: YFP.12
3 PLIP interactions:2 interactions with chain A, 1 interactions with chain B- Hydrophobic interactions: A:R.579, A:F.582, B:Q.561
6OU.6: 9 residues within 4Å:- Chain A: I.446, T.449, A.450, Y.453, Y.454, W.549
- Chain D: F.589, L.630
- Ligands: YFP.8
4 PLIP interactions:4 interactions with chain A- Hydrophobic interactions: A:I.446, A:W.549
- Hydrogen bonds: A:Y.454, A:Y.454
6OU.14: 6 residues within 4Å:- Chain A: I.661, L.664
- Chain B: L.585, Y.631, C.634
- Ligands: 6OU.15
4 PLIP interactions:2 interactions with chain B, 2 interactions with chain A- Hydrophobic interactions: B:L.585, B:Y.631, A:I.661, A:L.664
6OU.15: 10 residues within 4Å:- Chain B: F.589, L.630
- Chain C: I.446, T.449, A.450, Y.453, Y.454, W.549
- Ligands: 6OU.14, YFP.19
4 PLIP interactions:4 interactions with chain C- Hydrophobic interactions: C:I.446, C:W.549
- Hydrogen bonds: C:Y.454, C:Y.454
6OU.16: 5 residues within 4Å:- Chain B: C.578, R.579, F.582
- Chain C: Q.561
- Ligands: YFP.19
3 PLIP interactions:2 interactions with chain B, 1 interactions with chain C- Hydrophobic interactions: B:R.579, B:F.582, C:Q.561
6OU.21: 4 residues within 4Å:- Chain B: L.664
- Chain C: M.581, L.585, Y.631
2 PLIP interactions:2 interactions with chain C- Hydrophobic interactions: C:L.585, C:Y.631
6OU.22: 9 residues within 4Å:- Chain C: F.589, L.630
- Chain D: I.446, T.449, A.450, Y.453, Y.454, W.549
- Ligands: YFP.26
4 PLIP interactions:4 interactions with chain D- Hydrophobic interactions: D:I.446, D:W.549
- Hydrogen bonds: D:Y.454, D:Y.454
6OU.23: 5 residues within 4Å:- Chain C: C.578, R.579, F.582
- Chain D: Q.561
- Ligands: YFP.26
3 PLIP interactions:2 interactions with chain C, 1 interactions with chain D- Hydrophobic interactions: C:R.579, C:F.582, D:Q.561
6OU.28: 7 residues within 4Å:- Chain C: A.657, I.660, L.664
- Chain D: M.581, L.585, Y.631, F.638
5 PLIP interactions:1 interactions with chain C, 4 interactions with chain D- Hydrophobic interactions: C:I.660, D:L.585, D:Y.631, D:Y.631, D:F.638
6OU.29: 5 residues within 4Å:- Chain A: Q.561
- Chain D: C.578, R.579, F.582
- Ligands: YFP.8
3 PLIP interactions:2 interactions with chain D, 1 interactions with chain A- Hydrophobic interactions: D:R.579, D:F.582, A:Q.561
- 4 x 4DY: (6E)-N-(4-hydroxy-3-methoxybenzyl)-8-methylnon-6-enamide(Non-covalent)
4DY.5: 12 residues within 4Å:- Chain A: Y.511, S.512, L.515, F.543, T.550, N.551, Y.554, R.557, E.570, I.573
- Chain D: L.662, L.669
4 PLIP interactions:2 interactions with chain D, 2 interactions with chain A- Hydrophobic interactions: D:L.662, D:L.669, A:L.515
- Hydrogen bonds: A:R.557
4DY.17: 12 residues within 4Å:- Chain A: L.662, L.669
- Chain B: Y.511, S.512, L.515, F.543, T.550, N.551, Y.554, R.557, E.570, I.573
4 PLIP interactions:2 interactions with chain B, 2 interactions with chain A- Hydrophobic interactions: B:L.515, A:L.662, A:L.669
- Hydrogen bonds: B:R.557
4DY.24: 12 residues within 4Å:- Chain B: L.662, L.669
- Chain C: Y.511, S.512, L.515, F.543, T.550, N.551, Y.554, R.557, E.570, I.573
4 PLIP interactions:2 interactions with chain B, 2 interactions with chain C- Hydrophobic interactions: B:L.662, B:L.669, C:L.515
- Hydrogen bonds: C:R.557
4DY.30: 12 residues within 4Å:- Chain C: L.662, L.669
- Chain D: Y.511, S.512, L.515, F.543, T.550, N.551, Y.554, R.557, E.570, I.573
4 PLIP interactions:2 interactions with chain C, 2 interactions with chain D- Hydrophobic interactions: C:L.662, C:L.669, D:L.515
- Hydrogen bonds: D:R.557
- 4 x YFP: 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphoglycerol(Non-covalent)
YFP.8: 7 residues within 4Å:- Chain A: Y.435, F.438, F.559, Q.560
- Chain D: F.582
- Ligands: 6OU.6, 6OU.29
5 PLIP interactions:4 interactions with chain A, 1 interactions with chain D- Hydrophobic interactions: A:F.438, A:F.559, A:F.559, A:F.559, D:F.582
YFP.12: 7 residues within 4Å:- Chain A: F.582
- Chain B: Y.435, F.438, F.559, Q.560
- Ligands: 6OU.3, 6OU.4
5 PLIP interactions:4 interactions with chain B, 1 interactions with chain A- Hydrophobic interactions: B:F.438, B:F.559, B:F.559, B:F.559, A:F.582
YFP.19: 7 residues within 4Å:- Chain B: F.582
- Chain C: Y.435, F.438, F.559, Q.560
- Ligands: 6OU.15, 6OU.16
5 PLIP interactions:4 interactions with chain C, 1 interactions with chain B- Hydrophobic interactions: C:F.438, C:F.559, C:F.559, C:F.559, B:F.582
YFP.26: 7 residues within 4Å:- Chain C: F.582
- Chain D: Y.435, F.438, F.559, Q.560
- Ligands: 6OU.22, 6OU.23
5 PLIP interactions:1 interactions with chain C, 4 interactions with chain D- Hydrophobic interactions: C:F.582, D:F.438, D:F.559, D:F.559, D:F.559
- 2 x NA: SODIUM ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Kwon, D.H. et al., Heat-dependent opening of TRPV1 in the presence of capsaicin. Nat.Struct.Mol.Biol. (2021)
- Release Date
- 2021-07-28
- Peptides
- Transient receptor potential cation channel subfamily V member 1: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D - Membrane
-
We predict this structure to be a membrane protein.
- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY 3.37 Å
- Oligo State
- homo-tetramer
- Ligands
- 8 x LBN: 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine(Non-covalent)
- 12 x 6OU: [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate(Non-covalent)
- 4 x 4DY: (6E)-N-(4-hydroxy-3-methoxybenzyl)-8-methylnon-6-enamide(Non-covalent)
- 4 x YFP: 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphoglycerol(Non-covalent)
- 2 x NA: SODIUM ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Kwon, D.H. et al., Heat-dependent opening of TRPV1 in the presence of capsaicin. Nat.Struct.Mol.Biol. (2021)
- Release Date
- 2021-07-28
- Peptides
- Transient receptor potential cation channel subfamily V member 1: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D - Membrane
-
We predict this structure to be a membrane protein.