- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- homo-tetramer
- Ligands
- 4 x V5H: (2S)-2-[(9,10-dibromooctadecanoyl)oxy]-3-{[(S)-hydroxy{[(1R,2R,3S,4R,5R,6S)-2,3,6-trihydroxy-4,5-bis(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}propyl (9R,10S)-9,10-dibromooctadecanoate
V5H.1: 33 residues within 4Å:- Chain A: R.303, H.304, V.402, D.403, S.404, Y.405, S.406, L.409, F.410, F.416, F.437, A.440, M.441, T.444, N.445, L.447, Y.448, R.451, E.464, K.465, I.467, L.468, I.567, L.570, Q.571, I.574
- Chain D: F.481, F.485, I.532, L.533, A.536, L.540
- Ligands: PCW.2
25 PLIP interactions:22 interactions with chain A, 3 interactions with chain D- Hydrophobic interactions: A:Y.405, A:L.409, A:A.440, A:T.444, A:L.447, A:L.447, D:F.481, D:F.485, D:L.540
- Hydrogen bonds: A:R.303, A:V.402, A:D.403, A:D.403, A:Y.405, A:Y.405, A:S.406, A:S.406, A:Q.571
- Water bridges: A:R.451, A:R.451, A:E.464
- Salt bridges: A:H.304, A:R.451, A:K.465, A:K.465
V5H.4: 33 residues within 4Å:- Chain A: F.481, F.485, I.532, L.533, A.536, L.540
- Chain B: R.303, H.304, V.402, D.403, S.404, Y.405, S.406, L.409, F.410, F.416, F.437, A.440, M.441, T.444, N.445, L.447, Y.448, R.451, E.464, K.465, I.467, L.468, I.567, L.570, Q.571, I.574
- Ligands: PCW.5
25 PLIP interactions:22 interactions with chain B, 3 interactions with chain A- Hydrophobic interactions: B:Y.405, B:L.409, B:A.440, B:T.444, B:L.447, B:L.447, A:F.481, A:F.485, A:L.540
- Hydrogen bonds: B:R.303, B:V.402, B:D.403, B:D.403, B:Y.405, B:Y.405, B:S.406, B:S.406, B:Q.571
- Water bridges: B:R.451, B:R.451, B:E.464
- Salt bridges: B:H.304, B:R.451, B:K.465, B:K.465
V5H.6: 33 residues within 4Å:- Chain B: F.481, F.485, I.532, L.533, A.536, L.540
- Chain C: R.303, H.304, V.402, D.403, S.404, Y.405, S.406, L.409, F.410, F.416, F.437, A.440, M.441, T.444, N.445, L.447, Y.448, R.451, E.464, K.465, I.467, L.468, I.567, L.570, Q.571, I.574
- Ligands: PCW.7
25 PLIP interactions:22 interactions with chain C, 3 interactions with chain B- Hydrophobic interactions: C:Y.405, C:L.409, C:A.440, C:T.444, C:L.447, C:L.447, B:F.481, B:F.485, B:L.540
- Hydrogen bonds: C:R.303, C:V.402, C:D.403, C:D.403, C:Y.405, C:Y.405, C:S.406, C:S.406, C:Q.571
- Water bridges: C:R.451, C:R.451, C:E.464
- Salt bridges: C:H.304, C:R.451, C:K.465, C:K.465
V5H.8: 33 residues within 4Å:- Chain C: F.481, F.485, I.532, L.533, A.536, L.540
- Chain D: R.303, H.304, V.402, D.403, S.404, Y.405, S.406, L.409, F.410, F.416, F.437, A.440, M.441, T.444, N.445, L.447, Y.448, R.451, E.464, K.465, I.467, L.468, I.567, L.570, Q.571, I.574
- Ligands: PCW.9
25 PLIP interactions:22 interactions with chain D, 3 interactions with chain C- Hydrophobic interactions: D:Y.405, D:L.409, D:A.440, D:T.444, D:L.447, D:L.447, C:F.481, C:F.485, C:L.540
- Hydrogen bonds: D:R.303, D:V.402, D:D.403, D:D.403, D:Y.405, D:Y.405, D:S.406, D:S.406, D:Q.571
- Water bridges: D:R.451, D:R.451, D:E.464
- Salt bridges: D:H.304, D:R.451, D:K.465, D:K.465
- 4 x PCW: 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)
PCW.2: 21 residues within 4Å:- Chain A: F.401, V.402, Y.405, I.408, L.409, V.412, L.415, F.416, V.419, M.441, K.465, I.467, L.468, R.469, L.471, C.472, M.475, L.479
- Chain D: L.535, I.539
- Ligands: V5H.1
6 PLIP interactions:6 interactions with chain A- Hydrophobic interactions: A:F.401, A:Y.405, A:I.408, A:L.415, A:F.416, A:L.471
PCW.5: 21 residues within 4Å:- Chain A: L.535, I.539
- Chain B: F.401, V.402, Y.405, I.408, L.409, V.412, L.415, F.416, V.419, M.441, K.465, I.467, L.468, R.469, L.471, C.472, M.475, L.479
- Ligands: V5H.4
6 PLIP interactions:6 interactions with chain B- Hydrophobic interactions: B:F.401, B:Y.405, B:I.408, B:L.415, B:F.416, B:L.471
PCW.7: 21 residues within 4Å:- Chain B: L.535, I.539
- Chain C: F.401, V.402, Y.405, I.408, L.409, V.412, L.415, F.416, V.419, M.441, K.465, I.467, L.468, R.469, L.471, C.472, M.475, L.479
- Ligands: V5H.6
6 PLIP interactions:6 interactions with chain C- Hydrophobic interactions: C:F.401, C:Y.405, C:I.408, C:L.415, C:F.416, C:L.471
PCW.9: 21 residues within 4Å:- Chain C: L.535, I.539
- Chain D: F.401, V.402, Y.405, I.408, L.409, V.412, L.415, F.416, V.419, M.441, K.465, I.467, L.468, R.469, L.471, C.472, M.475, L.479
- Ligands: V5H.8
6 PLIP interactions:6 interactions with chain D- Hydrophobic interactions: D:F.401, D:Y.405, D:I.408, D:L.415, D:F.416, D:L.471
- 1 x NA: SODIUM ION(Non-functional Binders)
NA.3: 4 residues within 4Å:- Chain A: G.514
- Chain B: G.514
- Chain C: G.514
- Chain D: G.514
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:G.514
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Arnold, W.R. et al., Structural basis of TRPV1 modulation by endogenous bioactive lipids. Nat.Struct.Mol.Biol. (2024)
- Release Date
- 2024-05-08
- 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
- Oligo State
- homo-tetramer
- Ligands
- 4 x V5H: (2S)-2-[(9,10-dibromooctadecanoyl)oxy]-3-{[(S)-hydroxy{[(1R,2R,3S,4R,5R,6S)-2,3,6-trihydroxy-4,5-bis(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}propyl (9R,10S)-9,10-dibromooctadecanoate
- 4 x PCW: 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)
- 1 x NA: SODIUM ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Arnold, W.R. et al., Structural basis of TRPV1 modulation by endogenous bioactive lipids. Nat.Struct.Mol.Biol. (2024)
- Release Date
- 2024-05-08
- 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.