MolNFT v1 · #80548 · protein
Crystal structure of the VPA0106 protein from vibrio parahaemolyticus. northeast structural genomics consortium target VPR106.
3U07 · Uncharacterized protein VPA0106: “Crystal structure of the VPA0106 protein from vibrio parahaemolyticus. northeast structural genomics…”. X-ray diffraction, 15 pockets (best druggability 0.68). MolNFT v1 #80548 on GenesisL1: 3D…
- PDB
- 3U07
- Type
- protein
- Length
- 1,195 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uncharacterized protein VPA0106
- UniProt
- Q87JZ2
- Pockets
- 15 · best druggability 0.68
Structure
x-ray diffraction · 2 distinct chains · 30% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Uncharacterized protein VPA0106 | protein | 398 | 30% helix, 27% strand | Q87JZ2 |
| C | Uncharacterized protein VPA0106 | protein | 399 | 30% helix, 27% strand | Q87JZ2 |
Pockets
15 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 525 | 0.68 | 0.78 | 43 | empty |
| 2 | 570 | 0.68 | 0.78 | 61 | empty |
| 3 | 496 | 0.68 | 0.79 | 47 | empty |
| 4 | 332 | 0.57 | 0.76 | 37 | empty |
| 5 | 310 | 0.55 | 0.75 | 36 | empty |
Interfaces
3 interfaces between chains.
- B–C · 430 Ų buried · 11 hydrogen bonds · protein-protein
- A–C · 428 Ų buried · 10 hydrogen bonds · protein-protein
- A–B · 418 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 51 modified, 3 disulfide (engineered, disulfide).
Compared structures
- 3U07 · Crystal Structure of the VPA0106 protein from Vibrio parahaemolyticus. Northeast… · 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 Q87JZ2
- Elsewhere: RCSB PDB 3U07 · PDBe 3U07 · UniProt Q87JZ2
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.