Research workbench
Serotonin 4 (5-HT4) receptor-Gi-scFv16 complex
Analyse Serotonin 4 (5-HT4) receptor-Gi-scFv16 complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7XTA
- Type
- protein
- Length
- 1,115 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.2
- Source
- Homo sapiens; Mus musculus
- Molecule
- Guanine nucleotide-binding protein G(i) subunit alpha-1; Guanine nucleotide-binding…
- UniProt
- P63096, P62873, P59768, P0ABE7, Q13639
- Ligands
- SRO
- Pockets
- 17 · best druggability 0.82
Structure
electron microscopy · resolution 3.2 · 5 distinct chains · 35% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Guanine nucleotide-binding protein G(i) subunit alpha-1 | protein | 219 | 48% helix, 17% strand | P63096 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 333 | 7% helix, 48% strand | P62873 |
| E | scFv16 | protein | 230 | 5% helix, 46% strand | — |
| G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 50 | 52% helix, 0% strand | P59768 |
| R | Soluble cytochrome b562,5-hydroxytryptamine receptor 4 | protein | 283 | 80% helix, 0% strand | P0ABE7, Q13639 |
Ligands and binding sites
- SRO · Serotonin · ligand · chains R
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
17 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 780 | 0.82 | 0.85 | 67 | empty |
| 2 | 453 | 0.77 | 0.85 | 50 | SRO |
| 3 | 833 | 0.74 | 0.79 | 71 | empty |
| 4 | 123 | 0.54 | 0.83 | 28 | empty |
| 5 | 89 | 0.52 | 0.83 | 17 | empty |
Interfaces
6 interfaces between chains.
- B–G · 2021 Ų buried · 18 hydrogen bonds · protein-protein
- A–B · 1189 Ų buried · 15 hydrogen bonds · protein-protein
- A–R · 925 Ų buried · 6 hydrogen bonds · protein-protein
- A–E · 569 Ų buried · 5 hydrogen bonds · protein-protein
- B–E · 429 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 7XTA · Serotonin 4 (5-HT4) receptor-gi-SCFV16 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
- Q13639 · AlphaFold monomer V2.0 prediction for 5-hydroxytryptamine receptor 4 (Q13639) · a predicted model of the same protein · chain R against A, TM-score 0.94
- 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
- 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
- P0ABE7 · AlphaFold monomer V2.0 prediction for soluble cytochrome B562 (P0ABE7) · a predicted model of the same protein · chain R against A, TM-score 0.27
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 P0ABE7
- Every structure of UniProt Q13639
- Elsewhere: RCSB PDB 7XTA · PDBe 7XTA · UniProt P63096 · UniProt P62873 · UniProt P59768 · UniProt P0ABE7 · UniProt Q13639
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.