MolNFT v1 · #11419 · protein
Crystal structure of four-helix bundle model
1JM0 · Protein (four-helix bundle model): “Crystal structure of four-helix bundle model”. X-ray diffraction, 3 ligands (ACE, MN, NH2), 2 pockets (best druggability 0.49). MolNFT v1 #11419 on GenesisL1: 3D structure, binding sites and…
- PDB
- 1JM0
- Type
- protein
- Length
- 288 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein (four-helix bundle model)
- Ligands
- ACE, MN, NH2
- Pockets
- 2 · best druggability 0.49
Structure
x-ray diffraction · 1 distinct chain · 90% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F | Protein (four-helix bundle model) | protein | 48 | 90% helix, 0% strand | — |
Ligands and binding sites
- ACE · Acetyl group · ligand · 6 copies · chains A, B, C, D, E, F
- MN · Manganese (II) ion · metal · 11 copies · chains A, B, C, D, F, E
- NH2 · Amino group · ion · 6 copies · chains A, B, E, C, D, F
- DMS · Dimethyl sulfoxide · additive · 3 copies · chains A, B, C, D, E, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 165 | 0.49 | 0.77 | 24 | DMS |
| 2 | 141 | 0.39 | 0.73 | 15 | empty |
Interfaces
5 interfaces between chains.
- E–F · 1070 Ų buried · 11 hydrogen bonds · protein-protein
- A–B · 957 Ų buried · 10 hydrogen bonds · protein-protein
- C–D · 952 Ų buried · 10 hydrogen bonds · protein-protein
- B–E · 621 Ų buried · 7 hydrogen bonds · protein-protein
- D–F · 213 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 covalent (covalent ligand).
Compared structures
- 1JM0 · Crystal structure of four-helix bundle model · 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
- Elsewhere: RCSB PDB 1JM0 · PDBe 1JM0
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.