Research workbench
Human insulin in complex with serotonin and arginine
Analyse Human insulin in complex with serotonin and arginine in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5MT9
- Type
- protein
- Length
- 754 residues
- Chains
- 32
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Insulin
- UniProt
- P01308
- Ligands
- SRO, ARG, ZN, CL
- Pockets
- 12 · best druggability 0.86
Structure
x-ray diffraction · 7 distinct chains · 63% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, K | Insulin | protein | 20 | 65% helix, 5% strand | P01308 |
| B, F, L, N | Insulin | protein | 25 | 44% helix, 12% strand | P01308 |
| D, J, P, X | Insulin | protein | 28 | 75% helix, 11% strand | P01308 |
| E, G, I, M, O, S, W, a, c, e | Insulin | protein | 21 | 67% helix, 5% strand | P01308 |
| H, T, b, f | Insulin | protein | 29 | 72% helix, 10% strand | P01308 |
| Q, U, Y | Insulin | protein | 20 | 70% helix, 0% strand | P01308 |
| R, V, Z, d | Insulin | protein | 24 | 46% helix, 13% strand | P01308 |
Ligands and binding sites
- SRO · Serotonin · ligand · 16 copies · chains C, D, E, O, P, G, H, J, L, I, N, K, M, F, Q, R, a, b, S, T, V, X, U, W, Z, Y, c, d, e, f
- ARG · Arginine · ligand · 4 copies · chains B, F, N, P, H, L, J
- ZN · Zinc ion · metal · 8 copies · chains B, D, F, L, N, H, J, P, R, V, Z, T, X, b, d, f
- CL · Chloride ion · ion · 8 copies · chains B, D, F, L, N, H, J, P, T, X, b, R, V, Z, d, f
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
12 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 982 | 0.86 | 0.87 | 118 | SRO, ARG |
| 2 | 814 | 0.83 | 0.85 | 104 | SRO |
| 3 | 164 | 0.66 | 0.86 | 28 | SRO |
| 4 | 218 | 0.51 | 0.76 | 32 | SRO |
| 5 | 59 | 0.50 | 0.86 | 17 | CL |
Interfaces
91 interfaces between chains.
- E–F · 640 Ų buried · 4 hydrogen bonds · protein-protein
- C–D · 628 Ų buried · 6 hydrogen bonds · protein-protein
- K–L · 628 Ų buried · 6 hydrogen bonds · protein-protein
- G–H · 627 Ų buried · 6 hydrogen bonds · protein-protein
- O–P · 623 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 48 disulfide (disulfide).
Compared structures
- 5MT9 · Human insulin in complex with serotonin and arginine · the same entry in another collection · chain R against R, 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 P01308
- Elsewhere: RCSB PDB 5MT9 · PDBe 5MT9 · UniProt P01308
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.