MolNFT v1 · #125740 · protein
PB3 domain of human PLK4 in complex with coiled-coil domain of stil
5LHZ · SERINE/THREONINE-protein kinase PLK4: “PB3 domain of human PLK4 in complex with coiled-coil domain of stil”. X-ray diffraction, 2 pockets (best druggability 0.60). MolNFT v1 #125740 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5LHZ
- Type
- protein
- Length
- 296 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SERINE/THREONINE-protein kinase PLK4; Scl-interrupting locus protein
- EC
- 2.7.11.21
- UniProt
- O00444, Q15468
- Pockets
- 2 · best druggability 0.60
Structure
x-ray diffraction · 5 distinct chains · 31% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | SERINE/THREONINE-protein kinase PLK4 (EC 2.7.11.21) | protein | 78 | 21% helix, 44% strand | O00444 |
| B | SERINE/THREONINE-protein kinase PLK4 (EC 2.7.11.21) | protein | 76 | 20% helix, 38% strand | O00444 |
| C | SERINE/THREONINE-protein kinase PLK4 (EC 2.7.11.21) | protein | 77 | 21% helix, 39% strand | O00444 |
| D, F | Scl-interrupting locus protein | protein | 22 | 86% helix, 0% strand | Q15468 |
| E | Scl-interrupting locus protein | protein | 21 | 86% helix, 0% strand | Q15468 |
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 141 | 0.60 | 0.84 | 17 | empty |
| 2 | 51 | 0.41 | 0.82 | 15 | empty |
Interfaces
7 interfaces between chains.
- C–F · 875 Ų buried · 8 hydrogen bonds · protein-protein
- A–D · 874 Ų buried · 8 hydrogen bonds · protein-protein
- B–E · 779 Ų buried · 6 hydrogen bonds · protein-protein
- C–E · 387 Ų buried · 6 hydrogen bonds · protein-protein
- B–F · 337 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 5LHZ · PB3 Domain of Human PLK4 in Complex with Coiled-Coil Domain of STIL · the same entry in another collection · chain F against F, TM-score 1.00
- O00444 · AlphaFold monomer V2.0 prediction for SERINE/THREONINE-protein kinase PLK4 (O00444) · a predicted model of the same protein · chain B against A, TM-score 0.92
- Q15468 · AlphaFold monomer V2.0 prediction for scl-interrupting locus protein (Q15468) · a predicted model of the same protein · chain D against A, TM-score 0.80
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 O00444
- Every structure of UniProt Q15468
- Elsewhere: RCSB PDB 5LHZ · PDBe 5LHZ · UniProt O00444 · UniProt Q15468
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