SMTL ID : 7l2m.1

Cryo-EM structure of DkTx/RTX-bound full-length TRPV1

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-2-mer

Ligands

4 x 6EU: resiniferatoxin(Non-covalent)

6EU.1: 13 residues within 4Å: Chain A: Y.515, S.516, L.519, M.551, T.554, N.555, Y.558, R.561, I.573, I.577 Chain C: F.591, F.595, L.673 9 PLIP interactions: 2 interactions with chain C, 7 interactions with chain A Hydrophobic interactions: C:F.595, C:L.673, A:Y.515, A:L.519, A:L.519, A:I.577 Hydrogen bonds: A:Y.515, A:S.516, A:R.561 6EU.3: 13 residues within 4Å: Chain B: Y.515, S.516, L.519, M.551, T.554, N.555, Y.558, R.561, I.573, I.577 Chain D: F.591, F.595, L.673 9 PLIP interactions: 2 interactions with chain D, 7 interactions with chain B Hydrophobic interactions: D:F.595, D:L.673, B:Y.515, B:L.519, B:L.519, B:T.554, B:I.577 Hydrogen bonds: B:Y.515, B:S.516 6EU.5: 14 residues within 4Å: Chain B: F.591, F.595, L.673 Chain C: Y.515, S.516, L.519, M.551, T.554, N.555, Y.558, R.561, A.570, I.573, I.577 9 PLIP interactions: 7 interactions with chain C, 2 interactions with chain B Hydrophobic interactions: C:Y.515, C:L.519, C:L.519, C:T.554, C:I.577, B:F.595, B:L.673 Hydrogen bonds: C:Y.515, C:S.516 6EU.6: 13 residues within 4Å: Chain A: F.591, F.595, L.673 Chain D: Y.515, S.516, L.519, M.551, T.554, N.555, Y.558, R.561, I.573, I.577 9 PLIP interactions: 7 interactions with chain D, 2 interactions with chain A Hydrophobic interactions: D:Y.515, D:L.519, D:L.519, D:T.554, D:I.577, A:F.595, A:L.673 Hydrogen bonds: D:Y.515, D:S.516

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

NA.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) NA.4: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) NA.7: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, K. et al., Structural snapshots of TRPV1 reveal mechanism of polymodal functionality. Cell (2021)

Release Date

2021-09-22

Peptides

Transient receptor potential cation channel subfamily V member 1: ABCD
Tau-theraphotoxin-Hs1a: EF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

C
D

D
B

E
E

F
F

Membrane

We predict this structure to be a membrane protein.
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Transient receptor potential cation channel subfamily V member 1

Tau-theraphotoxin-Hs1a

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