MolNFT v1 · #151976 · protein
Helical MYD88 death domain filament
6I3N · Myeloid differentiation primary response protein MYD88: “Helical MYD88 death domain filament”. Electron microscopy, 20 pockets (best druggability 0.69). MolNFT v1 #151976 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6I3N
- Type
- protein
- Length
- 1,339 residues
- Chains
- 13
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Myeloid differentiation primary response protein MYD88
- UniProt
- H0Y4G9
- Pockets
- 20 · best druggability 0.69
Structure
electron microscopy · 1 distinct chain · 64% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| M, I, J, K, H, L, B, F, C, D, A, E, G | Myeloid differentiation primary response protein MYD88 | protein | 103 | 64% helix, 0% strand | H0Y4G9 |
Pockets
20 pockets found on a 1 Å grid, 17 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 487 | 0.69 | 0.80 | 54 | empty |
| 2 | 298 | 0.67 | 0.83 | 62 | empty |
| 3 | 398 | 0.64 | 0.79 | 41 | empty |
| 4 | 262 | 0.63 | 0.81 | 47 | empty |
| 5 | 219 | 0.62 | 0.82 | 38 | empty |
Interfaces
31 interfaces between chains.
- K–H · 673 Ų buried · 10 hydrogen bonds · protein-protein
- J–G · 671 Ų buried · 10 hydrogen bonds · protein-protein
- D–G · 667 Ų buried · 11 hydrogen bonds · protein-protein
- F–C · 664 Ų buried · 11 hydrogen bonds · protein-protein
- H–E · 664 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 6I3N · Helical MyD88 death domain filament · the same entry in another collection · chain M against M, TM-score 1.00
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 H0Y4G9
- Elsewhere: RCSB PDB 6I3N · PDBe 6I3N · UniProt H0Y4G9
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