Research workbench
Serotonin 7 (5-HT7) receptor-gs-NB35 complex
Analyse Serotonin 7 (5-HT7) receptor-gs-NB35 complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7XTC
- Type
- protein
- Length
- 1,038 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Guanine nucleotide-binding protein G(S) subunit alpha isoforms short; Guanine…
- UniProt
- P63092, P62873, P59768, P34969
- Ligands
- 8K3, CLR
- Pockets
- 13 · best druggability 0.83
Structure
electron microscopy · 5 distinct chains · 38% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Guanine nucleotide-binding protein G(S) subunit alpha isoforms short | protein | 240 | 47% helix, 17% strand | P63092 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 338 | 8% helix, 46% strand | P62873 |
| G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 57 | 53% helix, 0% strand | P59768 |
| N | NANOBODY35 | protein | 128 | 7% helix, 41% strand | — |
| R | Soluble cytochrome B562,5-hydroxytryptamine receptor 7 | protein | 275 | 78% helix, 0% strand | P34969 |
Ligands and binding sites
- 8K3 · 3-(2-azanylethyl)-1H-indole-5-carboxamide · ligand · chains R
- CLR · Cholesterol · ligand · chains R
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1004 | 0.83 | 0.84 | 74 | empty |
| 2 | 372 | 0.77 | 0.87 | 39 | 8K3 |
| 3 | 725 | 0.75 | 0.81 | 63 | empty |
| 4 | 992 | 0.75 | 0.78 | 63 | empty |
| 5 | 445 | 0.70 | 0.81 | 59 | empty |
Interfaces
6 interfaces between chains.
- B–G · 2108 Ų buried · 15 hydrogen bonds · protein-protein
- A–R · 1550 Ų buried · 14 hydrogen bonds · protein-protein
- A–B · 1449 Ų buried · 18 hydrogen bonds · protein-protein
- A–N · 888 Ų buried · 7 hydrogen bonds · protein-protein
- B–N · 534 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 7XTC · Serotonin 7 (5-HT7) receptor-Gs-Nb35 complex · the same entry in another collection · chain R against R, TM-score 1.00
- P62873 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I)/G(S)/G(T)… · a predicted model of the same protein · chain B against A, TM-score 0.99
- P34969 · AlphaFold monomer V2.0 prediction for 5-hydroxytryptamine receptor 7 (P34969) · a predicted model of the same protein · chain R against A, TM-score 0.93
- P59768 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I)/G(S)/G(O)… · a predicted model of the same protein · chain G against A, TM-score 0.92
- P63092 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(S) subunit… · a predicted model of the same protein · chain A against A, TM-score 0.83
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 P63092
- Every structure of UniProt P62873
- Every structure of UniProt P59768
- Every structure of UniProt P34969
- Elsewhere: RCSB PDB 7XTC · PDBe 7XTC · UniProt P63092 · UniProt P62873 · UniProt P59768 · UniProt P34969
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