MolNFT v1 · #94637 · protein + DNA
The structure of FIXK2 from bradyrhizobium japonicum
4I2O · FIXK2 protein: “The structure of FIXK2 from bradyrhizobium japonicum”. X-ray diffraction, 10 pockets (best druggability 0.75). MolNFT v1 #94637 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4I2O
- Type
- protein + DNA
- Length
- 445 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- FIXK2 protein; Promoter of FIXK2 direct target, fixn, upstream; Promoter of FIXK2 direct…
- UniProt
- O69245
- Pockets
- 10 · best druggability 0.75
Structure
x-ray diffraction · 3 distinct chains · 40% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | FIXK2 protein | protein | 198 | 40% helix, 28% strand | O69245 |
| W | Promoter of FIXK2 direct target, fixn, upstream | dna | 25 | — | — |
| X | Promoter of FIXK2 direct target, fixn, downstream | dna | 24 | — | — |
Pockets
10 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 819 | 0.75 | 0.80 | 69 | empty |
| 2 | 397 | 0.66 | 0.80 | 48 | empty |
| 3 | 394 | 0.66 | 0.79 | 48 | empty |
| 4 | 208 | 0.51 | 0.77 | 25 | empty |
| 5 | 178 | 0.49 | 0.77 | 26 | empty |
Interfaces
6 interfaces between chains.
- A–B · 2210 Ų buried · 31 hydrogen bonds · protein-protein
- W–X · 1104 Ų buried · 109 hydrogen bonds · nucleic-nucleic
- A–W · 394 Ų buried · 12 hydrogen bonds · protein-nucleic
- B–X · 394 Ų buried · 12 hydrogen bonds · protein-nucleic
- A–X · 309 Ų buried · 7 hydrogen bonds · protein-nucleic
Compared structures
- 4I2O · The Structure of FixK2 from Bradyrhizobium japonicum · 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 O69245
- Elsewhere: RCSB PDB 4I2O · PDBe 4I2O · UniProt O69245
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