MolNFT v1 · #145297 · protein
Structure of the sthk cyclic nucleotide-gated potassium channel in complex with cgmp
6CJT: “Structure of the sthk cyclic nucleotide-gated potassium channel in complex with cgmp”. Electron microscopy, 2 ligands (PGW, PCG), 20 pockets (best druggability 0.76). MolNFT v1 #145297 on GenesisL1: 3D structure, binding sites and…
- PDB
- 6CJT
- Type
- protein
- Length
- 1,584 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sthk cyclic nucleotide-gated potassium channel
- UniProt
- G0GA88
- Ligands
- PGW, PCG
- Pockets
- 20 · best druggability 0.76
Structure
electron microscopy · 1 distinct chain · 56% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Sthk cyclic nucleotide-gated potassium channel | protein | 396 | 56% helix, 7% strand | G0GA88 |
Ligands and binding sites
- PGW · (1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy) phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate · ligand · 24 copies · chains A, B, C, D
- PCG · Cyclic guanosine monophosphate · ligand · 4 copies · 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, 19 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 770 | 0.76 | 0.81 | 87 | empty |
| 2 | 915 | 0.71 | 0.76 | 68 | empty |
| 3 | 553 | 0.70 | 0.79 | 52 | empty |
| 4 | 555 | 0.70 | 0.79 | 57 | empty |
| 5 | 234 | 0.67 | 0.84 | 37 | empty |
Interfaces
6 interfaces between chains.
- A–D · 2647 Ų buried · 19 hydrogen bonds · protein-protein
- B–C · 2644 Ų buried · 19 hydrogen bonds · protein-protein
- A–B · 2643 Ų buried · 19 hydrogen bonds · protein-protein
- C–D · 2638 Ų buried · 19 hydrogen bonds · protein-protein
- B–D · 48 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6CJT · Structure of the SthK cyclic nucleotide-gated potassium channel in complex with cGMP · the same entry in another collection · chain A against A, TM-score 1.00
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 G0GA88
- Elsewhere: RCSB PDB 6CJT · PDBe 6CJT · UniProt G0GA88
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