MolNFT v1 · #168038 · protein
Crystal structure of the FAM46C/PLK4/CEP192 complex
6W3J · Terminal nucleotidyltransferase 5C: “Crystal structure of the FAM46C/PLK4/CEP192 complex”. X-ray diffraction, 6 pockets (best druggability 0.81). MolNFT v1 #168038 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6W3J
- Type
- protein
- Length
- 571 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Terminal nucleotidyltransferase 5C; SERINE/THREONINE-protein kinase PLK4; Centrosomal…
- EC
- 2.7.7.19, 2.7.11.21
- UniProt
- Q5VWP2, O00444, Q8TEP8
- Pockets
- 6 · best druggability 0.81
Structure
x-ray diffraction · 3 distinct chains · 40% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Terminal nucleotidyltransferase 5C (EC 2.7.7.19) | protein | 331 | 49% helix, 19% strand | Q5VWP2 |
| B | SERINE/THREONINE-protein kinase PLK4 (EC 2.7.11.21) | protein | 218 | 26% helix, 32% strand | O00444 |
| C | Centrosomal protein of 192 kda | protein | 22 | 50% helix, 0% strand | Q8TEP8 |
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1114 | 0.81 | 0.83 | 81 | empty |
| 2 | 249 | 0.56 | 0.78 | 38 | empty |
| 3 | 151 | 0.47 | 0.77 | 21 | empty |
| 4 | 99 | 0.46 | 0.79 | 19 | empty |
| 5 | 83 | 0.32 | 0.74 | 11 | empty |
Interfaces
2 interfaces between chains.
- B–C · 911 Ų buried · 11 hydrogen bonds · protein-protein
- A–B · 671 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 6W3J · Crystal structure of the FAM46C/Plk4/Cep192 complex · the same entry in another collection · chain A against A, TM-score 1.00
- Q5VWP2 · AlphaFold monomer V2.0 prediction for terminal nucleotidyltransferase 5C (Q5VWP2) · a predicted model of the same protein · chain A against A, TM-score 0.97
- 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 0.96
- Q8TEP8 · AlphaFold monomer V2.0 prediction for centrosomal protein of 192 kda (Q8TEP8) · 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 Q5VWP2
- Every structure of UniProt O00444
- Every structure of UniProt Q8TEP8
- Elsewhere: RCSB PDB 6W3J · PDBe 6W3J · UniProt Q5VWP2 · UniProt O00444 · UniProt Q8TEP8
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