SMTL ID : 8ekp.1

Apo rat TRPV2 in nanodiscs, state 1

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

8 x PEX: 1,2-DIDECANOYL-SN-GLYCERO-3-PHOSPHOETHANOLAMINE(Non-covalent)

PEX.1: 17 residues within 4Å: Chain A: M.468, D.469, Y.471, F.472, L.510, L.513, R.517, S.526, I.529, Q.530, L.534, Q.663 Chain B: V.543, F.547, L.632, V.635, L.636 11 PLIP interactions: 9 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:Y.471, A:L.510, A:I.529, A:L.534, B:V.635, B:L.636 Hydrogen bonds: A:M.468, A:Y.471, A:Q.530, A:Q.663 Salt bridges: A:R.517 PEX.2: 13 residues within 4Å: Chain A: F.395, N.396, C.399, Y.400, G.444, Y.447, Q.452, E.473, F.476, Y.514, Y.515, Y.675, W.677 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.447, A:Y.675, A:W.677, A:W.677, A:W.677 Hydrogen bonds: A:Q.452, A:E.473, A:Y.515 PEX.3: 17 residues within 4Å: Chain B: M.468, D.469, Y.471, F.472, L.510, L.513, R.517, S.526, I.529, Q.530, L.534, Q.663 Chain C: V.543, F.547, L.632, V.635, L.636 11 PLIP interactions: 9 interactions with chain B, 2 interactions with chain C Hydrophobic interactions: B:Y.471, B:L.510, B:I.529, B:L.534, C:V.635, C:L.636 Hydrogen bonds: B:M.468, B:Y.471, B:Q.530, B:Q.663 Salt bridges: B:R.517 PEX.4: 13 residues within 4Å: Chain B: F.395, N.396, C.399, Y.400, G.444, Y.447, Q.452, E.473, F.476, Y.514, Y.515, Y.675, W.677 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:Y.447, B:Y.675, B:W.677, B:W.677, B:W.677 Hydrogen bonds: B:Q.452, B:E.473, B:Y.515 PEX.5: 17 residues within 4Å: Chain C: M.468, D.469, Y.471, F.472, L.510, L.513, R.517, S.526, I.529, Q.530, L.534, Q.663 Chain D: V.543, F.547, L.632, V.635, L.636 11 PLIP interactions: 9 interactions with chain C, 2 interactions with chain D Hydrophobic interactions: C:Y.471, C:L.510, C:I.529, C:L.534, D:V.635, D:L.636 Hydrogen bonds: C:M.468, C:Y.471, C:Q.530, C:Q.663 Salt bridges: C:R.517 PEX.6: 13 residues within 4Å: Chain C: F.395, N.396, C.399, Y.400, G.444, Y.447, Q.452, E.473, F.476, Y.514, Y.515, Y.675, W.677 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:Y.447, C:Y.675, C:W.677, C:W.677, C:W.677 Hydrogen bonds: C:Q.452, C:E.473, C:Y.515 PEX.7: 17 residues within 4Å: Chain A: V.543, F.547, L.632, V.635, L.636 Chain D: M.468, D.469, Y.471, F.472, L.510, L.513, R.517, S.526, I.529, Q.530, L.534, Q.663 11 PLIP interactions: 9 interactions with chain D, 2 interactions with chain A Hydrophobic interactions: D:Y.471, D:L.510, D:I.529, D:L.534, A:V.635, A:L.636 Hydrogen bonds: D:M.468, D:Y.471, D:Q.530, D:Q.663 Salt bridges: D:R.517 PEX.8: 13 residues within 4Å: Chain D: F.395, N.396, C.399, Y.400, G.444, Y.447, Q.452, E.473, F.476, Y.514, Y.515, Y.675, W.677 8 PLIP interactions: 8 interactions with chain D Hydrophobic interactions: D:Y.447, D:Y.675, D:W.677, D:W.677, D:W.677 Hydrogen bonds: D:Q.452, D:E.473, D:Y.515

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Haug, F.M. et al., Functional and structural insights into activation of TRPV2 by weak acids. Embo J. (2024)

Release Date

2023-09-27

Peptides

Transient receptor potential cation channel subfamily V member 2: 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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Transient receptor potential cation channel subfamily V member 2

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