Research workbench
Serotonin 1D (5-HT1D) receptor-gi protein complex
Analyse Serotonin 1D (5-HT1D) receptor-gi protein complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7E32
- Type
- protein
- Length
- 1,117 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Guanine nucleotide-binding protein G(I) subunit alpha-1; Guanine nucleotide-binding…
- UniProt
- P63096, P62873, P59768, P28221
- Ligands
- SRO, CLR
- Pockets
- 13 · best druggability 0.82
Structure
electron microscopy · 5 distinct chains · 37% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Guanine nucleotide-binding protein G(I) subunit alpha-1 | protein | 219 | 50% helix, 18% strand | P63096 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 333 | 8% helix, 47% strand | P62873 |
| E | SCFV16 | protein | 230 | 5% helix, 47% strand | — |
| G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 50 | 50% helix, 0% strand | P59768 |
| R | Soluble cytochrome B562,5-hydroxytryptamine receptor 1D | protein | 285 | 84% helix, 0% strand | P28221 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 702 | 0.82 | 0.86 | 63 | empty |
| 2 | 349 | 0.75 | 0.85 | 40 | SRO |
| 3 | 843 | 0.74 | 0.79 | 84 | empty |
| 4 | 206 | 0.57 | 0.80 | 27 | empty |
| 5 | 137 | 0.55 | 0.82 | 34 | empty |
Interfaces
6 interfaces between chains.
- B–G · 2080 Ų buried · 13 hydrogen bonds · protein-protein
- A–R · 1566 Ų buried · 17 hydrogen bonds · protein-protein
- A–B · 1324 Ų buried · 17 hydrogen bonds · protein-protein
- A–E · 638 Ų buried · 11 hydrogen bonds · protein-protein
- B–E · 486 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 7E32 · Serotonin 1D (5-HT1D) receptor-Gi protein 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
- 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 0.90
- P28221 · AlphaFold monomer V2.0 prediction for 5-hydroxytryptamine receptor 1D (P28221) · a predicted model of the same protein · chain R against A, TM-score 0.89
- P63096 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I) subunit… · a predicted model of the same protein · chain A against A, TM-score 0.81
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 P63096
- Every structure of UniProt P62873
- Every structure of UniProt P59768
- Every structure of UniProt P28221
- Elsewhere: RCSB PDB 7E32 · PDBe 7E32 · UniProt P63096 · UniProt P62873 · UniProt P59768 · UniProt P28221
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.