MolNFT v1 · #186557 · protein
Cryo-EM structure of apo-state of human CNGA3/CNGB3 channel
7RHS · Cyclic nucleotide-gated cation channel alpha-3: “Cryo-EM structure of apo-state of human CNGA3/CNGB3 channel”. Electron microscopy, 2 ligands (NAG, NA), 20 pockets (best druggability 0.80). MolNFT v1 #186557 on GenesisL1: 3D…
- PDB
- 7RHS
- Type
- protein
- Length
- 1,804 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cyclic nucleotide-gated cation channel alpha-3; Cyclic nucleotide-gated cation channel…
- UniProt
- Q16281, Q9NQW8
- Ligands
- NAG, NA
- Pockets
- 20 · best druggability 0.80
Structure
electron microscopy · 4 distinct chains · 60% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cyclic nucleotide-gated cation channel alpha-3 | protein | 456 | 59% helix, 10% strand | Q16281 |
| B | Cyclic nucleotide-gated cation channel alpha-3 | protein | 453 | 60% helix, 9% strand | Q16281 |
| C | Cyclic nucleotide-gated cation channel alpha-3 | protein | 454 | 60% helix, 9% strand | Q16281 |
| D | Cyclic nucleotide-gated cation channel beta-3 | protein | 441 | 60% helix, 10% strand | Q9NQW8 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 3 copies · chains A, B, C
- NA · Sodium ion · metal · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1039 | 0.80 | 0.82 | 115 | empty |
| 2 | 94 | 0.75 | 0.97 | 25 | NA |
| 3 | 757 | 0.75 | 0.80 | 86 | empty |
| 4 | 579 | 0.73 | 0.81 | 63 | empty |
| 5 | 522 | 0.71 | 0.80 | 47 | empty |
Interfaces
6 interfaces between chains.
- C–D · 2873 Ų buried · 20 hydrogen bonds · protein-protein
- B–C · 2828 Ų buried · 25 hydrogen bonds · protein-protein
- A–D · 2737 Ų buried · 26 hydrogen bonds · protein-protein
- A–B · 2723 Ų buried · 23 hydrogen bonds · protein-protein
- B–D · 115 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 glycan (N-glycosylation).
Compared structures
- 7RHS · Cryo-EM structure of apo-state of human CNGA3/CNGB3 channel · the same entry in another collection · chain D against D, TM-score 1.00
- Q16281 · AlphaFold monomer V2.0 prediction for cyclic nucleotide-gated cation channel alpha-3… · a predicted model of the same protein · chain A against A, TM-score 0.94
- Q9NQW8 · AlphaFold monomer V2.0 prediction for cyclic nucleotide-gated cation channel beta-3… · a predicted model of the same protein · chain D against A, TM-score 0.92
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt Q16281
- Every structure of UniProt Q9NQW8
- Elsewhere: RCSB PDB 7RHS · PDBe 7RHS · UniProt Q16281 · UniProt Q9NQW8
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