MolNFT v1 · #15339 · protein
Crystal structure of a dps protein from bacillus brevis
1N1Q: “Crystal structure of a dps protein from bacillus brevis”. X-ray diffraction, 1 ligand (FEO), 3 pockets (best druggability 0.37). MolNFT v1 #15339 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1N1Q
- Type
- protein
- Length
- 588 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Dps protein
- UniProt
- P83695
- Ligands
- FEO
- Pockets
- 3 · best druggability 0.37
Structure
x-ray diffraction · 3 distinct chains · 78% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Dps protein | protein | 149 | 79% helix, 0% strand | P83695 |
| C | Dps protein | protein | 146 | 77% helix, 0% strand | P83695 |
| D | Dps protein | protein | 144 | 78% helix, 0% strand | P83695 |
Ligands and binding sites
- FEO · Mu-oxo-diiron · ligand · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 95 | 0.37 | 0.76 | 17 | empty |
| 2 | 54 | 0.28 | 0.74 | 12 | empty |
| 3 | 51 | 0.26 | 0.74 | 20 | empty |
Interfaces
4 interfaces between chains.
- C–D · 1137 Ų buried · 16 hydrogen bonds · protein-protein
- A–B · 1129 Ų buried · 14 hydrogen bonds · protein-protein
- B–D · 418 Ų buried · 5 hydrogen bonds · protein-protein
- B–C · 369 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 1N1Q · Crystal structure of a Dps protein from Bacillus brevis · the same entry in another collection · chain D against D, TM-score 1.00
- P83695 · AlphaFold monomer V2.0 prediction for DNA protection during starvation protein (P83695) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P83695
- Elsewhere: RCSB PDB 1N1Q · PDBe 1N1Q · UniProt P83695
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.