Research workbench
Mouse serotonin 5-HT3 receptor, serotonin-bound, F conformation
Analyse Mouse serotonin 5-HT3 receptor, serotonin-bound, F conformation in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6HIN
- Type
- protein
- Length
- 1,675 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5-hydroxytryptamine receptor 3A
- UniProt
- E9QLC0
- Ligands
- SRO, NAG
- Pockets
- 17 · best druggability 0.82
Structure
electron microscopy · 1 distinct chain · 32% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E | 5-hydroxytryptamine receptor 3A | protein | 335 | 32% helix, 27% strand | E9QLC0 |
Ligands and binding sites
- SRO · Serotonin · ligand · 5 copies · chains A, B, C, D, E
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 25 copies · chains A, B, C, D, E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
17 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 581 | 0.82 | 0.87 | 96 | SRO |
| 2 | 1028 | 0.81 | 0.82 | 97 | empty |
| 3 | 545 | 0.81 | 0.87 | 87 | SRO |
| 4 | 520 | 0.80 | 0.86 | 81 | SRO |
| 5 | 486 | 0.78 | 0.86 | 75 | SRO |
Interfaces
5 interfaces between chains.
- A–E · 2897 Ų buried · 15 hydrogen bonds · protein-protein
- D–E · 2894 Ų buried · 13 hydrogen bonds · protein-protein
- C–D · 2889 Ų buried · 15 hydrogen bonds · protein-protein
- B–C · 2887 Ų buried · 14 hydrogen bonds · protein-protein
- A–B · 2874 Ų buried · 14 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 15 glycan, 5 disulfide (N-glycosylation, disulfide).
Compared structures
- 6HIN · Mouse serotonin 5-HT3 receptor, serotonin-bound, F conformation · 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 E9QLC0
- Elsewhere: RCSB PDB 6HIN · PDBe 6HIN · UniProt E9QLC0
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