MolNFT v1 · #109625 · protein
Vibrio cholerae O395 ribokinase in apo form
4X8F: “Vibrio cholerae O395 ribokinase in apo form”. X-ray diffraction, 20 pockets (best druggability 0.78). MolNFT v1 #109625 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4X8F
- Type
- protein
- Length
- 4,896 residues
- Chains
- 16
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ribokinase
- EC
- 2.7.1.15
- UniProt
- A5F1B7
- Pockets
- 20 · best druggability 0.78
Structure
x-ray diffraction · 1 distinct chain · 35% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P | Ribokinase (EC 2.7.1.15) | protein | 306 | 35% helix, 22% strand | A5F1B7 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1109 | 0.78 | 0.80 | 97 | empty |
| 2 | 1068 | 0.78 | 0.80 | 97 | empty |
| 3 | 948 | 0.76 | 0.79 | 91 | empty |
| 4 | 1031 | 0.76 | 0.78 | 96 | empty |
| 5 | 1198 | 0.76 | 0.78 | 97 | empty |
Interfaces
26 interfaces between chains.
- O–P · 1240 Ų buried · 19 hydrogen bonds · protein-protein
- A–B · 1225 Ų buried · 17 hydrogen bonds · protein-protein
- E–F · 1221 Ų buried · 8 hydrogen bonds · protein-protein
- I–J · 1216 Ų buried · 12 hydrogen bonds · protein-protein
- M–N · 1205 Ų buried · 13 hydrogen bonds · protein-protein
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 A5F1B7
- Elsewhere: RCSB PDB 4X8F · PDBe 4X8F · UniProt A5F1B7
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