Research workbench
Cryo-EM structure of human rod CNGA1/B1 channel in camp-bound state
Analyse Cryo-EM structure of human rod CNGA1/B1 channel in camp-bound state in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7RHG
- Type
- protein
- Length
- 1,790 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cgmp-gated cation channel alpha-1; Cyclic nucleotide-gated cation channel beta-1
- UniProt
- P29973, Q14028
- Ligands
- CMP
- Pockets
- 20 · best druggability 0.75
Structure
electron microscopy · 3 distinct chains · 59% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C | Cgmp-gated cation channel alpha-1 | protein | 450 | 60% helix, 9% strand | P29973 |
| B | Cyclic nucleotide-gated cation channel beta-1 | protein | 432 | 58% helix, 10% strand | Q14028 |
| A, D | Cgmp-gated cation channel alpha-1 | protein | 454 | 60% helix, 10% strand | P29973 |
Ligands and binding sites
- CMP · Adenosine-3',5'-cyclic-monophosphate · ligand · 4 copies · chains C, B, A, 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, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 709 | 0.75 | 0.81 | 80 | empty |
| 2 | 467 | 0.72 | 0.82 | 46 | empty |
| 3 | 517 | 0.70 | 0.80 | 48 | empty |
| 4 | 177 | 0.69 | 0.88 | 29 | empty |
| 5 | 556 | 0.69 | 0.78 | 60 | empty |
Interfaces
6 interfaces between chains.
- C–B · 2943 Ų buried · 29 hydrogen bonds · protein-protein
- C–D · 2872 Ų buried · 31 hydrogen bonds · protein-protein
- B–A · 2826 Ų buried · 28 hydrogen bonds · protein-protein
- A–D · 2777 Ų buried · 27 hydrogen bonds · protein-protein
- B–D · 47 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 7RHG · Cryo-EM structure of human rod CNGA1/B1 channel in cAMP-bound state · the same entry in another collection · chain D against D, TM-score 1.00
- P29973 · AlphaFold monomer V2.0 prediction for cgmp-gated cation channel alpha-1 (P29973) · a predicted model of the same protein · chain A against A, TM-score 0.92
- Q14028 · AlphaFold monomer V2.0 prediction for cyclic nucleotide-gated cation channel beta-1… · a predicted model of the same protein · chain B against A, TM-score 0.91
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 P29973
- Every structure of UniProt Q14028
- Elsewhere: RCSB PDB 7RHG · PDBe 7RHG · UniProt P29973 · UniProt Q14028
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