MolNFT v1 · #138198 · protein
Structure of the frb domain of mtor bound to a substrate recruitment peptide of S6K1
5WBH · SERINE/THREONINE-protein kinase mtor: “Structure of the frb domain of mtor bound to a substrate recruitment peptide of S6K1”. X-ray diffraction, 6 pockets (best druggability 0.60). MolNFT v1 #138198 on GenesisL1: 3D structure…
- PDB
- 5WBH
- Type
- protein
- Length
- 485 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SERINE/THREONINE-protein kinase mtor; Ribosomal protein S6 kinase beta-1
- EC
- 2.7.11.1
- UniProt
- P42345, P23443
- Pockets
- 6 · best druggability 0.60
Structure
x-ray diffraction · 4 distinct chains · 85% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, D | SERINE/THREONINE-protein kinase mtor (EC 2.7.11.1) | protein | 92 | 88% helix, 0% strand | P42345 |
| C | SERINE/THREONINE-protein kinase mtor (EC 2.7.11.1) | protein | 96 | 84% helix, 0% strand | P42345 |
| E | SERINE/THREONINE-protein kinase mtor (EC 2.7.11.1) | protein | 94 | 88% helix, 0% strand | P42345 |
| W | Ribosomal protein S6 kinase beta-1 (EC 2.7.11.1) | protein | 19 | 58% helix, 0% strand | P23443 |
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 481 | 0.60 | 0.74 | 39 | empty |
| 2 | 163 | 0.59 | 0.83 | 28 | empty |
| 3 | 106 | 0.51 | 0.82 | 24 | empty |
| 4 | 120 | 0.44 | 0.77 | 19 | empty |
| 5 | 143 | 0.42 | 0.75 | 19 | empty |
Interfaces
8 interfaces between chains.
- A–B · 526 Ų buried · 6 hydrogen bonds · protein-protein
- A–D · 504 Ų buried · 8 hydrogen bonds · protein-protein
- D–W · 483 Ų buried · 2 hydrogen bonds · protein-protein
- C–D · 316 Ų buried · 5 hydrogen bonds · protein-protein
- C–W · 216 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 5WBH · Structure of the FRB domain of mTOR bound to a substrate recruitment peptide of S6K1 · the same entry in another collection · chain W against W, TM-score 1.00
- P42345 · AlphaFold monomer V2.0 prediction for SERINE/THREONINE-protein kinase mtor (P42345) · a predicted model of the same protein · chain E against A, TM-score 0.98
- P23443 · AlphaFold monomer V2.0 prediction for ribosomal protein S6 kinase beta-1 (P23443) · a predicted model of the same protein · chain W against A, TM-score 0.27
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 P42345
- Every structure of UniProt P23443
- Elsewhere: RCSB PDB 5WBH · PDBe 5WBH · UniProt P42345 · UniProt P23443
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