MolNFT v1 · #118953 · protein
Regulatory domain of aphb in vibrio vulnificus
5FHK · Lysr family transcriptional regulator: “Regulatory domain of aphb in vibrio vulnificus”. X-ray diffraction, 18 pockets (best druggability 0.83). MolNFT v1 #118953 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5FHK
- Type
- protein
- Length
- 1,189 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Lysr family transcriptional regulator
- UniProt
- A0A087IWB4
- Pockets
- 18 · best druggability 0.83
Structure
x-ray diffraction · 6 distinct chains · 31% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Lysr family transcriptional regulator | protein | 197 | 31% helix, 32% strand | A0A087IWB4 |
| B | Lysr family transcriptional regulator | protein | 193 | 33% helix, 34% strand | A0A087IWB4 |
| C | Lysr family transcriptional regulator | protein | 197 | 31% helix, 36% strand | A0A087IWB4 |
| D | Lysr family transcriptional regulator | protein | 203 | 30% helix, 35% strand | A0A087IWB4 |
| E | Lysr family transcriptional regulator | protein | 200 | 31% helix, 37% strand | A0A087IWB4 |
| F | Lysr family transcriptional regulator | protein | 199 | 33% helix, 36% strand | A0A087IWB4 |
Pockets
18 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 956 | 0.83 | 0.84 | 84 | empty |
| 2 | 384 | 0.74 | 0.85 | 39 | empty |
| 3 | 325 | 0.73 | 0.85 | 32 | empty |
| 4 | 740 | 0.65 | 0.74 | 53 | empty |
| 5 | 172 | 0.59 | 0.82 | 28 | empty |
Interfaces
9 interfaces between chains.
- A–B · 1463 Ų buried · 21 hydrogen bonds · protein-protein
- D–E · 1423 Ų buried · 23 hydrogen bonds · protein-protein
- C–F · 1376 Ų buried · 27 hydrogen bonds · protein-protein
- A–C · 295 Ų buried · 4 hydrogen bonds · protein-protein
- B–E · 281 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 5FHK · Regulatory domain of AphB in Vibrio vulnificus · the same entry in another collection · chain D against D, 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 A0A087IWB4
- Elsewhere: RCSB PDB 5FHK · PDBe 5FHK · UniProt A0A087IWB4
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