MolNFT v1 · #78970 · protein
Crystal structure of the tail sheath protein protease resistant fragment from bacteriophage phikz
3SPE · PHIKZ029: “Crystal structure of the tail sheath protein protease resistant fragment from bacteriophage phikz”. X-ray diffraction, 1 ligand (PO4), 4 pockets (best druggability 0.38). MolNFT v1 #78970 on GenesisL1: 3D structure…
- PDB
- 3SPE
- Type
- protein
- Length
- 506 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- PHIKZ029
- UniProt
- Q8SDD3
- Ligands
- PO4
- Pockets
- 4 · best druggability 0.38
Structure
x-ray diffraction · 2 distinct chains · 19% helix, 33% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | PHIKZ029 | protein | 252 | 19% helix, 32% strand | Q8SDD3 |
| B | PHIKZ029 | protein | 254 | 18% helix, 33% strand | Q8SDD3 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 65 | 0.38 | 0.79 | 19 | empty |
| 2 | 61 | 0.36 | 0.78 | 18 | empty |
| 3 | 59 | 0.32 | 0.76 | 15 | PO4 |
| 4 | 59 | 0.29 | 0.74 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 1202 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 10 modified (engineered).
Compared structures
- 3SPE · Crystal structure of the tail sheath protein protease resistant fragment from… · 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 Q8SDD3
- Elsewhere: RCSB PDB 3SPE · PDBe 3SPE · UniProt Q8SDD3
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