MolNFT v1 · #148216 · protein
Binary complex of 14-3-3 zeta with ubiquitin specific protease 8 (USP8) PSER718 peptide
6F09 · 14-3-3 protein ZETA/DELTA: “Binary complex of 14-3-3 zeta with ubiquitin specific protease 8 (USP8) PSER718 peptide”. X-ray diffraction, 6 pockets (best druggability 0.74). MolNFT v1 #148216 on GenesisL1: 3D structure, binding sites…
- PDB
- 6F09
- Type
- protein
- Length
- 937 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 14-3-3 protein ZETA/DELTA; Ubiquitin carboxyl-terminal hydrolase 8
- EC
- 3.4.19.12
- UniProt
- P63104, P40818
- Pockets
- 6 · best druggability 0.74
Structure
x-ray diffraction · 8 distinct chains · 81% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| P | 14-3-3 protein ZETA/DELTA | protein | 227 | 85% helix, 0% strand | P63104 |
| A | Ubiquitin carboxyl-terminal hydrolase 8 (EC 3.4.19.12) | protein | 7 | 0% helix, 0% strand | P40818 |
| Q | 14-3-3 protein ZETA/DELTA | protein | 225 | 82% helix, 0% strand | P63104 |
| B | Ubiquitin carboxyl-terminal hydrolase 8 (EC 3.4.19.12) | protein | 9 | 0% helix, 0% strand | P40818 |
| R | 14-3-3 protein ZETA/DELTA | protein | 225 | 85% helix, 0% strand | P63104 |
| C | Ubiquitin carboxyl-terminal hydrolase 8 (EC 3.4.19.12) | protein | 6 | 0% helix, 0% strand | P40818 |
| S | 14-3-3 protein ZETA/DELTA | protein | 228 | 82% helix, 0% strand | P63104 |
| D | Ubiquitin carboxyl-terminal hydrolase 8 (EC 3.4.19.12) | protein | 10 | 0% helix, 0% strand | P40818 |
Pockets
6 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 941 | 0.74 | 0.77 | 95 | empty |
| 2 | 64 | 0.67 | 0.94 | 18 | empty |
| 3 | 420 | 0.65 | 0.78 | 47 | empty |
| 4 | 177 | 0.56 | 0.80 | 27 | empty |
| 5 | 79 | 0.52 | 0.85 | 19 | empty |
Interfaces
8 interfaces between chains.
- S–D · 786 Ų buried · 19 hydrogen bonds · protein-protein
- Q–B · 731 Ų buried · 18 hydrogen bonds · protein-protein
- P–A · 646 Ų buried · 12 hydrogen bonds · protein-protein
- R–C · 539 Ų buried · 11 hydrogen bonds · protein-protein
- P–S · 312 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 modified (phosphorylation).
Compared structures
- 6F09 · Binary complex of 14-3-3 zeta with ubiquitin specific protease 8 (USP8) pSer718 peptide · the same entry in another collection · chain D against D, TM-score 1.00
- P63104 · AlphaFold monomer V2.0 prediction for 14-3-3 protein ZETA/DELTA (P63104) · a predicted model of the same protein · chain R against A, TM-score 0.99
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 P63104
- Every structure of UniProt P40818
- Elsewhere: RCSB PDB 6F09 · PDBe 6F09 · UniProt P63104 · UniProt P40818
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