SMTL ID : 9u5c.1

Structure of hTRPC3 in complex with Nb1-94 at 2.25 angstrom

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-4-mer

Ligands

8 x CA: CALCIUM ION(Non-covalent)

CA.1: 2 residues within 4Å: Chain A: E.73, D.798 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.73, A:E.73, H2O.1, H2O.1, H2O.1 CA.2: 4 residues within 4Å: Chain A: E.786, N.788, E.791 Chain C: E.789 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain A Metal complexes: C:E.789, A:E.786, A:E.791 CA.5: 2 residues within 4Å: Chain C: E.73, D.798 5 PLIP interactions: 2 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:E.73, C:E.73, H2O.1, H2O.1, H2O.1 CA.6: 4 residues within 4Å: Chain C: E.786, N.788, E.791 Chain E: E.789 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain E Metal complexes: C:E.786, C:E.791, E:E.789 CA.9: 2 residues within 4Å: Chain E: E.73, D.798 5 PLIP interactions: 2 interactions with chain E, 3 Ligand-Water interactions Metal complexes: E:E.73, E:E.73, H2O.1, H2O.1, H2O.1 CA.10: 4 residues within 4Å: Chain E: E.786, N.788, E.791 Chain G: E.789 3 PLIP interactions: 2 interactions with chain E, 1 interactions with chain G Metal complexes: E:E.786, E:E.791, G:E.789 CA.13: 2 residues within 4Å: Chain G: E.73, D.798 5 PLIP interactions: 2 interactions with chain G, 3 Ligand-Water interactions Metal complexes: G:E.73, G:E.73, H2O.2, H2O.2, H2O.2 CA.14: 4 residues within 4Å: Chain A: E.789 Chain G: E.786, N.788, E.791 3 PLIP interactions: 2 interactions with chain G, 1 interactions with chain A Metal complexes: G:E.786, G:E.791, A:E.789

4 x ZN: ZINC ION(Non-covalent)

ZN.3: 4 residues within 4Å: Chain A: H.178, C.182, C.184, C.187 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.178, A:C.182, A:C.184, A:C.187 ZN.7: 4 residues within 4Å: Chain C: H.178, C.182, C.184, C.187 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.178, C:C.182, C:C.184, C:C.187 ZN.11: 4 residues within 4Å: Chain E: H.178, C.182, C.184, C.187 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:H.178, E:C.182, E:C.184, E:C.187 ZN.15: 4 residues within 4Å: Chain G: H.178, C.182, C.184, C.187 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:H.178, G:C.182, G:C.184, G:C.187

4 x 01: [(2~{S})-2-[(~{E})-octadec-9-enoyl]oxy-3-oxidanyl-propyl] octadec-9-enoate

01.4: 12 residues within 4Å: Chain A: L.558, E.603, F.606, K.607, F.610, W.611 Chain C: N.633, Y.636, V.637, I.641, V.644, T.645 9 PLIP interactions: 4 interactions with chain C, 5 interactions with chain A Hydrophobic interactions: C:V.637, C:I.641, C:I.641, C:V.644, A:L.558, A:F.606, A:F.610, A:F.610 Hydrogen bonds: A:E.603 01.8: 12 residues within 4Å: Chain C: L.558, E.603, F.606, K.607, F.610, W.611 Chain E: N.633, Y.636, V.637, I.641, V.644, T.645 9 PLIP interactions: 4 interactions with chain E, 5 interactions with chain C Hydrophobic interactions: E:V.637, E:I.641, E:I.641, E:V.644, C:L.558, C:F.606, C:F.610, C:F.610 Hydrogen bonds: C:E.603 01.12: 12 residues within 4Å: Chain E: L.558, E.603, F.606, K.607, F.610, W.611 Chain G: N.633, Y.636, V.637, I.641, V.644, T.645 9 PLIP interactions: 4 interactions with chain G, 5 interactions with chain E Hydrophobic interactions: G:V.637, G:I.641, G:I.641, G:V.644, E:L.558, E:F.606, E:F.610, E:F.610 Hydrogen bonds: E:E.603 01.16: 12 residues within 4Å: Chain A: N.633, Y.636, V.637, I.641, V.644, T.645 Chain G: L.558, E.603, F.606, K.607, F.610, W.611 9 PLIP interactions: 4 interactions with chain A, 5 interactions with chain G Hydrophobic interactions: A:V.637, A:I.641, A:I.641, A:V.644, G:L.558, G:F.606, G:F.610, G:F.610 Hydrogen bonds: G:E.603

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, Y. et al., Structural mechanism of the agonist binding on human TRPC3 channel. Nat Commun (2025)

Release Date

2025-10-08

Peptides

Short transient receptor potential channel 3: ACEG
Nb1-94: BDFH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

G
G

B
B

D
D

F
F

H
H

Membrane

We predict this structure to be a membrane protein.
Show / Hide

Short transient receptor potential channel 3

Nb1-94

Related Entries With Identical Sequence