SMTL ID : 8xgg.1

Human Cx36/GJD2 gap junction channel in complex with 1-hexanol.

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-12-mer

Ligands

60 x MC3: 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)(Non-functional Binders)

MC3.1: 8 residues within 4Å: Chain A: P.72, I.73, R.77, Y.78, F.81, L.220 Chain L: E.249, V.252 Ligand excluded by PLIP MC3.2: 3 residues within 4Å: Chain A: Y.78, G.216, L.220 Ligand excluded by PLIP MC3.3: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP MC3.4: 6 residues within 4Å: Chain A: F.223, S.224, T.251, V.255, F.258, A.259 Ligand excluded by PLIP MC3.5: 6 residues within 4Å: Chain A: T.248, T.251, V.252, V.255, F.256, A.259 Ligand excluded by PLIP MC3.7: 8 residues within 4Å: Chain B: P.72, I.73, R.77, Y.78, F.81, L.220 Chain C: E.249, V.252 Ligand excluded by PLIP MC3.8: 3 residues within 4Å: Chain B: Y.78, G.216, L.220 Ligand excluded by PLIP MC3.9: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP MC3.10: 6 residues within 4Å: Chain B: F.223, S.224, T.251, V.255, F.258, A.259 Ligand excluded by PLIP MC3.11: 6 residues within 4Å: Chain B: T.248, T.251, V.252, V.255, F.256, A.259 Ligand excluded by PLIP MC3.13: 8 residues within 4Å: Chain C: P.72, I.73, R.77, Y.78, F.81, L.220 Chain G: E.249, V.252 Ligand excluded by PLIP MC3.14: 3 residues within 4Å: Chain C: Y.78, G.216, L.220 Ligand excluded by PLIP MC3.15: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP MC3.16: 6 residues within 4Å: Chain C: F.223, S.224, T.251, V.255, F.258, A.259 Ligand excluded by PLIP MC3.17: 6 residues within 4Å: Chain C: T.248, T.251, V.252, V.255, F.256, A.259 Ligand excluded by PLIP MC3.19: 8 residues within 4Å: Chain B: E.249, V.252 Chain D: P.72, I.73, R.77, Y.78, F.81, L.220 Ligand excluded by PLIP MC3.20: 3 residues within 4Å: Chain D: Y.78, G.216, L.220 Ligand excluded by PLIP MC3.21: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP MC3.22: 6 residues within 4Å: Chain D: F.223, S.224, T.251, V.255, F.258, A.259 Ligand excluded by PLIP MC3.23: 6 residues within 4Å: Chain D: T.248, T.251, V.252, V.255, F.256, A.259 Ligand excluded by PLIP MC3.25: 8 residues within 4Å: Chain D: E.249, V.252 Chain E: P.72, I.73, R.77, Y.78, F.81, L.220 Ligand excluded by PLIP MC3.26: 3 residues within 4Å: Chain E: Y.78, G.216, L.220 Ligand excluded by PLIP MC3.27: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP MC3.28: 6 residues within 4Å: Chain E: F.223, S.224, T.251, V.255, F.258, A.259 Ligand excluded by PLIP MC3.29: 6 residues within 4Å: Chain E: T.248, T.251, V.252, V.255, F.256, A.259 Ligand excluded by PLIP MC3.31: 8 residues within 4Å: Chain E: E.249, V.252 Chain F: P.72, I.73, R.77, Y.78, F.81, L.220 Ligand excluded by PLIP MC3.32: 3 residues within 4Å: Chain F: Y.78, G.216, L.220 Ligand excluded by PLIP MC3.33: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP MC3.34: 6 residues within 4Å: Chain F: F.223, S.224, T.251, V.255, F.258, A.259 Ligand excluded by PLIP MC3.35: 6 residues within 4Å: Chain F: T.248, T.251, V.252, V.255, F.256, A.259 Ligand excluded by PLIP MC3.37: 8 residues within 4Å: Chain F: E.249, V.252 Chain G: P.72, I.73, R.77, Y.78, F.81, L.220 Ligand excluded by PLIP MC3.38: 3 residues within 4Å: Chain G: Y.78, G.216, L.220 Ligand excluded by PLIP MC3.39: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP MC3.40: 6 residues within 4Å: Chain G: F.223, S.224, T.251, V.255, F.258, A.259 Ligand excluded by PLIP MC3.41: 6 residues within 4Å: Chain G: T.248, T.251, V.252, V.255, F.256, A.259 Ligand excluded by PLIP MC3.43: 8 residues within 4Å: Chain A: E.249, V.252 Chain H: P.72, I.73, R.77, Y.78, F.81, L.220 Ligand excluded by PLIP MC3.44: 3 residues within 4Å: Chain H: Y.78, G.216, L.220 Ligand excluded by PLIP MC3.45: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP MC3.46: 6 residues within 4Å: Chain H: F.223, S.224, T.251, V.255, F.258, A.259 Ligand excluded by PLIP MC3.47: 6 residues within 4Å: Chain H: T.248, T.251, V.252, V.255, F.256, A.259 Ligand excluded by PLIP MC3.49: 8 residues within 4Å: Chain H: E.249, V.252 Chain I: P.72, I.73, R.77, Y.78, F.81, L.220 Ligand excluded by PLIP MC3.50: 3 residues within 4Å: Chain I: Y.78, G.216, L.220 Ligand excluded by PLIP MC3.51: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP MC3.52: 6 residues within 4Å: Chain I: F.223, S.224, T.251, V.255, F.258, A.259 Ligand excluded by PLIP MC3.53: 6 residues within 4Å: Chain I: T.248, T.251, V.252, V.255, F.256, A.259 Ligand excluded by PLIP MC3.55: 8 residues within 4Å: Chain I: E.249, V.252 Chain J: P.72, I.73, R.77, Y.78, F.81, L.220 Ligand excluded by PLIP MC3.56: 3 residues within 4Å: Chain J: Y.78, G.216, L.220 Ligand excluded by PLIP MC3.57: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP MC3.58: 6 residues within 4Å: Chain J: F.223, S.224, T.251, V.255, F.258, A.259 Ligand excluded by PLIP MC3.59: 6 residues within 4Å: Chain J: T.248, T.251, V.252, V.255, F.256, A.259 Ligand excluded by PLIP MC3.61: 8 residues within 4Å: Chain J: E.249, V.252 Chain K: P.72, I.73, R.77, Y.78, F.81, L.220 Ligand excluded by PLIP MC3.62: 3 residues within 4Å: Chain K: Y.78, G.216, L.220 Ligand excluded by PLIP MC3.63: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP MC3.64: 6 residues within 4Å: Chain K: F.223, S.224, T.251, V.255, F.258, A.259 Ligand excluded by PLIP MC3.65: 6 residues within 4Å: Chain K: T.248, T.251, V.252, V.255, F.256, A.259 Ligand excluded by PLIP MC3.67: 8 residues within 4Å: Chain K: E.249, V.252 Chain L: P.72, I.73, R.77, Y.78, F.81, L.220 Ligand excluded by PLIP MC3.68: 3 residues within 4Å: Chain L: Y.78, G.216, L.220 Ligand excluded by PLIP MC3.69: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP MC3.70: 6 residues within 4Å: Chain L: F.223, S.224, T.251, V.255, F.258, A.259 Ligand excluded by PLIP MC3.71: 6 residues within 4Å: Chain L: T.248, T.251, V.252, V.255, F.256, A.259 Ligand excluded by PLIP

12 x HE2: HEXAN-1-OL(Non-covalent)

HE2.6: 5 residues within 4Å: Chain A: A.39, I.83, I.84, C.87 Chain L: I.40 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.39 HE2.12: 5 residues within 4Å: Chain B: A.39, I.83, I.84, C.87 Chain C: I.40 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:A.39 HE2.18: 5 residues within 4Å: Chain C: A.39, I.83, I.84, C.87 Chain G: I.40 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:A.39 HE2.24: 5 residues within 4Å: Chain B: I.40 Chain D: A.39, I.83, I.84, C.87 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:A.39 HE2.30: 5 residues within 4Å: Chain D: I.40 Chain E: A.39, I.83, I.84, C.87 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:A.39 HE2.36: 5 residues within 4Å: Chain E: I.40 Chain F: A.39, I.83, I.84, C.87 1 PLIP interactions: 1 interactions with chain F Hydrophobic interactions: F:A.39 HE2.42: 5 residues within 4Å: Chain F: I.40 Chain G: A.39, I.83, I.84, C.87 1 PLIP interactions: 1 interactions with chain G Hydrophobic interactions: G:A.39 HE2.48: 5 residues within 4Å: Chain A: I.40 Chain H: A.39, I.83, I.84, C.87 1 PLIP interactions: 1 interactions with chain H Hydrophobic interactions: H:A.39 HE2.54: 5 residues within 4Å: Chain H: I.40 Chain I: A.39, I.83, I.84, C.87 1 PLIP interactions: 1 interactions with chain I Hydrophobic interactions: I:A.39 HE2.60: 5 residues within 4Å: Chain I: I.40 Chain J: A.39, I.83, I.84, C.87 1 PLIP interactions: 1 interactions with chain J Hydrophobic interactions: J:A.39 HE2.66: 5 residues within 4Å: Chain J: I.40 Chain K: A.39, I.83, I.84, C.87 1 PLIP interactions: 1 interactions with chain K Hydrophobic interactions: K:A.39 HE2.72: 5 residues within 4Å: Chain K: I.40 Chain L: A.39, I.83, I.84, C.87 1 PLIP interactions: 1 interactions with chain L Hydrophobic interactions: L:A.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cho, H.J. et al., Mefloquine-induced conformational shift in Cx36 N-terminal helix leading to channel closure mediated by lipid bilayer. Nat Commun (2024)

Release Date

2024-11-06

Peptides

Gap junction delta-2 protein: ABCDEFGHIJKL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

C
B

D
D

E
E

F
F

G
G

H
H

I
I

J
J

K
K

L
L

Membrane

We predict this structure to be a membrane protein.
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Gap junction delta-2 protein

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