MolNFT v1 · #139069 · protein
Crystal structure of mouse PLK1-pbd in complex with phosphopeptide from HEF1 (799-809)
5X3S · SERINE/THREONINE-protein kinase PLK1: “Crystal structure of mouse PLK1-pbd in complex with phosphopeptide from HEF1 (799-809)”. X-ray diffraction, 3 pockets (best druggability 0.74). MolNFT v1 #139069 on GenesisL1: 3D structure…
- PDB
- 5X3S
- Type
- protein
- Length
- 462 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SERINE/THREONINE-protein kinase PLK1; Peptide from enhancer of filamentation 1
- EC
- 2.7.11.21
- UniProt
- Q07832, Q14511
- Pockets
- 3 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 29% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, A | SERINE/THREONINE-protein kinase PLK1 (EC 2.7.11.21) | protein | 223 | 30% helix, 27% strand | Q07832 |
| C, D | Peptide from enhancer of filamentation 1 | protein | 8 | 0% helix, 38% strand | Q14511 |
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 618 | 0.74 | 0.81 | 79 | empty |
| 2 | 99 | 0.36 | 0.74 | 22 | empty |
| 3 | 73 | 0.36 | 0.77 | 16 | empty |
Interfaces
5 interfaces between chains.
- B–D · 576 Ų buried · 11 hydrogen bonds · protein-protein
- A–C · 555 Ų buried · 10 hydrogen bonds · protein-protein
- B–A · 236 Ų buried · 4 hydrogen bonds · protein-protein
- B–C · 118 Ų buried · 0 hydrogen bonds · protein-protein
- A–D · 51 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 2 modified (phosphorylation).
Compared structures
- 5X3S · Crystal structure of mouse Plk1-PBD in complex with phosphopeptide from HEF1 (799-809) · the same entry in another collection · chain B against B, TM-score 1.00
- Q07832 · AlphaFold monomer V2.0 prediction for SERINE/THREONINE-protein kinase PLK1 (Q07832) · a predicted model of the same protein · chain B against A, TM-score 0.93
- Q14511 · AlphaFold monomer V2.0 prediction for enhancer of filamentation 1 (Q14511) · a predicted model of the same protein · chain C against A, TM-score 0.45
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 Q07832
- Every structure of UniProt Q14511
- Elsewhere: RCSB PDB 5X3S · PDBe 5X3S · UniProt Q07832 · UniProt Q14511
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