SMTL ID : 6gyn.1

Structure of human HCN4 hyperpolarization-activated cyclic nucleotide-gated ion channel

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

28 x PC1: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)(Non-functional Binders)

PC1.1: 11 residues within 4Å: Chain A: W.143, L.187, L.190, L.191, L.193, S.194, I.197, W.233 Ligands: PC1.3, PC1.8, PC1.9 Ligand excluded by PLIP PC1.2: 7 residues within 4Å: Chain A: S.262, W.263, G.264, Y.267 Chain B: W.295 Ligands: 3PE.4, PC1.10 Ligand excluded by PLIP PC1.3: 4 residues within 4Å: Chain A: I.197, D.234 Ligands: PC1.1, 3PE.5 Ligand excluded by PLIP PC1.6: 1 residues within 4Å: Ligands: PC1.7 Ligand excluded by PLIP PC1.7: 10 residues within 4Å: Chain A: I.220, I.224, M.227, L.228, M.275, L.318 Chain B: T.306, M.310 Ligands: PC1.6, 3PE.16 Ligand excluded by PLIP PC1.8: 10 residues within 4Å: Chain A: Q.245, M.291, S.292, W.295, L.299, I.302 Ligands: PC1.1, PC1.9, PC1.33, 3PE.35 Ligand excluded by PLIP PC1.9: 4 residues within 4Å: Chain A: L.187, L.244 Ligands: PC1.1, PC1.8 Ligand excluded by PLIP PC1.10: 11 residues within 4Å: Chain B: Q.245, M.291, S.292, W.295, L.299, I.302 Ligands: PC1.2, 3PE.4, PC1.11, PC1.12, PC1.14 Ligand excluded by PLIP PC1.11: 5 residues within 4Å: Chain B: L.187, L.244, Q.245 Ligands: PC1.10, PC1.12 Ligand excluded by PLIP PC1.12: 11 residues within 4Å: Chain B: W.143, L.187, L.190, L.191, L.193, S.194, I.197, W.233 Ligands: PC1.10, PC1.11, PC1.14 Ligand excluded by PLIP PC1.13: 7 residues within 4Å: Chain B: S.262, W.263, G.264, Y.267 Chain C: W.295 Ligands: 3PE.15, PC1.19 Ligand excluded by PLIP PC1.14: 5 residues within 4Å: Chain B: I.197, D.234 Ligands: PC1.10, PC1.12, 3PE.16 Ligand excluded by PLIP PC1.17: 2 residues within 4Å: Chain B: I.224 Ligands: PC1.18 Ligand excluded by PLIP PC1.18: 10 residues within 4Å: Chain B: I.220, I.224, M.227, L.228, M.275, L.318 Chain C: T.306, M.310 Ligands: PC1.17, 3PE.25 Ligand excluded by PLIP PC1.19: 10 residues within 4Å: Chain C: Q.245, M.291, S.292, W.295, L.299, I.302 Ligands: PC1.13, 3PE.15, PC1.20, PC1.21 Ligand excluded by PLIP PC1.20: 4 residues within 4Å: Chain C: L.187, L.244 Ligands: PC1.19, PC1.21 Ligand excluded by PLIP PC1.21: 11 residues within 4Å: Chain C: W.143, L.187, L.190, L.191, L.193, S.194, I.197, W.233 Ligands: PC1.19, PC1.20, PC1.23 Ligand excluded by PLIP PC1.22: 7 residues within 4Å: Chain C: S.262, W.263, G.264, Y.267 Chain D: W.295 Ligands: 3PE.24, PC1.30 Ligand excluded by PLIP PC1.23: 4 residues within 4Å: Chain C: I.197, D.234 Ligands: PC1.21, 3PE.25 Ligand excluded by PLIP PC1.26: 2 residues within 4Å: Chain C: I.224 Ligands: PC1.27 Ligand excluded by PLIP PC1.27: 10 residues within 4Å: Chain C: I.220, I.224, M.227, L.228, M.275, L.318 Chain D: T.306, M.310 Ligands: PC1.26, 3PE.36 Ligand excluded by PLIP PC1.28: 2 residues within 4Å: Chain D: I.224 Ligands: PC1.29 Ligand excluded by PLIP PC1.29: 10 residues within 4Å: Chain A: T.306, M.310 Chain D: I.220, I.224, M.227, L.228, M.275, L.318 Ligands: 3PE.5, PC1.28 Ligand excluded by PLIP PC1.30: 10 residues within 4Å: Chain D: Q.245, M.291, S.292, W.295, L.299, I.302 Ligands: PC1.22, 3PE.24, PC1.31, PC1.32 Ligand excluded by PLIP PC1.31: 4 residues within 4Å: Chain D: L.187, L.244 Ligands: PC1.30, PC1.32 Ligand excluded by PLIP PC1.32: 11 residues within 4Å: Chain D: W.143, L.187, L.190, L.191, L.193, S.194, I.197, W.233 Ligands: PC1.30, PC1.31, PC1.34 Ligand excluded by PLIP PC1.33: 7 residues within 4Å: Chain A: W.295 Chain D: S.262, W.263, G.264, Y.267 Ligands: PC1.8, 3PE.35 Ligand excluded by PLIP PC1.34: 4 residues within 4Å: Chain D: I.197, D.234 Ligands: PC1.32, 3PE.36 Ligand excluded by PLIP

8 x 3PE: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOETHANOLAMINE(Non-covalent)

3PE.4: 11 residues within 4Å: Chain A: I.81, V.84, F.89, T.94, W.97, H.232, Y.267, L.271, M.275 Ligands: PC1.2, PC1.10 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.81, A:V.84, A:L.271 Hydrogen bonds: A:T.94, A:T.94 3PE.5: 14 residues within 4Å: Chain A: V.76, L.196, I.200, H.201, N.222, L.223, G.225, M.226, L.299, V.303, T.306, M.310 Ligands: PC1.3, PC1.29 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:V.76, A:L.196, A:I.200, A:N.222, A:L.299, A:V.303, A:T.306 Salt bridges: A:H.201 3PE.15: 11 residues within 4Å: Chain B: I.81, V.84, F.89, T.94, W.97, H.232, Y.267, L.271, M.275 Ligands: PC1.13, PC1.19 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:I.81, B:V.84, B:L.271 Hydrogen bonds: B:T.94, B:T.94 3PE.16: 14 residues within 4Å: Chain B: V.76, L.196, I.200, H.201, N.222, L.223, G.225, M.226, L.299, V.303, T.306, M.310 Ligands: PC1.7, PC1.14 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:V.76, B:L.196, B:I.200, B:N.222, B:L.299, B:V.303, B:T.306 Salt bridges: B:H.201 3PE.24: 11 residues within 4Å: Chain C: I.81, V.84, F.89, T.94, W.97, H.232, Y.267, L.271, M.275 Ligands: PC1.22, PC1.30 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:I.81, C:V.84, C:L.271 Hydrogen bonds: C:T.94, C:T.94 3PE.25: 14 residues within 4Å: Chain C: V.76, L.196, I.200, H.201, N.222, L.223, G.225, M.226, L.299, V.303, T.306, M.310 Ligands: PC1.18, PC1.23 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:V.76, C:L.196, C:I.200, C:N.222, C:L.299, C:V.303, C:T.306 Salt bridges: C:H.201 3PE.35: 11 residues within 4Å: Chain D: I.81, V.84, F.89, T.94, W.97, H.232, Y.267, L.271, M.275 Ligands: PC1.8, PC1.33 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:I.81, D:V.84, D:L.271 Hydrogen bonds: D:T.94, D:T.94 3PE.36: 14 residues within 4Å: Chain D: V.76, L.196, I.200, H.201, N.222, L.223, G.225, M.226, L.299, V.303, T.306, M.310 Ligands: PC1.27, PC1.34 8 PLIP interactions: 8 interactions with chain D Hydrophobic interactions: D:V.76, D:L.196, D:I.200, D:N.222, D:L.299, D:V.303, D:T.306 Salt bridges: D:H.201

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shintre, C.A. et al., Structure of human HCN4 hyperpolarization-activated cyclic nucleotide-gated ion channel. To Be Published

Release Date

2019-05-08

Peptides

Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4: 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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Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4

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