SMTL ID : 8ev8.1

Cryo-EM structure of cGMP bound truncated human CNGA3/CNGB3 channel in lipid nanodisc, closed state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-1-mer

Ligands

3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 4 residues within 4Å: Chain A: F.188, G.189, N.197, S.199 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.199 NAG.3: 5 residues within 4Å: Chain B: F.188, G.189, T.190, N.197, S.199 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.197, B:S.199 NAG.5: 5 residues within 4Å: Chain C: F.188, G.189, T.190, N.197, S.199 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:T.190 Hydrogen bonds: C:S.199

4 x PCG: CYCLIC GUANOSINE MONOPHOSPHATE(Non-covalent)

PCG.2: 7 residues within 4Å: Chain A: V.397, F.405, G.406, R.421, R.422, T.423, I.426 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.406, A:T.423, A:T.423, A:A.424 Salt bridges: A:R.422 PCG.4: 10 residues within 4Å: Chain B: V.387, V.397, F.405, G.406, E.407, R.421, R.422, T.423, A.424, I.426 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:G.406, B:E.407, B:S.409, B:T.423, B:T.423, B:T.423 Salt bridges: B:R.422 PCG.6: 10 residues within 4Å: Chain C: V.397, L.399, F.405, G.406, S.409, R.421, R.422, T.423, A.424, I.426 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:G.406, C:S.409, C:T.423, C:T.423 Salt bridges: C:R.422 PCG.7: 7 residues within 4Å: Chain D: V.502, V.513, N.533, R.535, T.536, A.537, V.539 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:G.522, D:T.536, D:T.536, D:T.536 Salt bridges: D:R.535

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hu, Z. et al., Conformational trajectory of allosteric gating of the human cone photoreceptor cyclic nucleotide-gated channel. Nat Commun (2023)

Release Date

2023-08-09

Peptides

Cyclic nucleotide-gated cation channel alpha-3: ABC
Cyclic nucleotide-gated cation channel beta-3: D

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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Cyclic nucleotide-gated cation channel alpha-3

Cyclic nucleotide-gated cation channel beta-3

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