Research workbench
Crystal structure of vipd from legionella pneumophila
Analyse Crystal structure of vipd from legionella pneumophila in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4AKF
- Type
- protein
- Length
- 560 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Vipd
- UniProt
- Q5ZRP9
- Pockets
- 10 · best druggability 0.78
Structure
x-ray diffraction · 1 distinct chain · 50% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Vipd | protein | 560 | 50% helix, 11% strand | Q5ZRP9 |
Pockets
10 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 257 | 0.78 | 0.91 | 38 | empty |
| 2 | 498 | 0.65 | 0.77 | 44 | empty |
| 3 | 52 | 0.53 | 0.88 | 17 | empty |
| 4 | 118 | 0.44 | 0.78 | 21 | empty |
| 5 | 105 | 0.41 | 0.77 | 18 | empty |
Compared structures
- 4AKF · Crystal structure of VipD from Legionella pneumophila · 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 Q5ZRP9
- Elsewhere: RCSB PDB 4AKF · PDBe 4AKF · UniProt Q5ZRP9
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