MolNFT v1 · #185850 · protein
In situ structure of nebulin bound to actin filament in skeletal sarcomere
7QIM · Acts protein: “In situ structure of nebulin bound to actin filament in skeletal sarcomere”. Electron microscopy, 2 ligands (ADP, MG), 19 pockets (best druggability 0.85). MolNFT v1 #185850 on GenesisL1: 3D structure, binding sites…
- PDB
- 7QIM
- Type
- protein
- Length
- 2,030 residues
- Chains
- 7
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Acts protein; Nebulin (mouse)
- UniProt
- A0A7K7PM04
- Ligands
- ADP, MG
- Pockets
- 19 · best druggability 0.85
Structure
electron microscopy · 3 distinct chains · 53% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C, B, A, D, E | Acts protein | protein | 371 | 43% helix, 18% strand | A0A7K7PM04 |
| F | Nebulin (mouse) | protein | 105 | 73% helix, 0% strand | — |
| G | Nebulin (mouse) | protein | 70 | 73% helix, 0% strand | — |
Ligands and binding sites
- ADP · Adenosine-5'-diphosphate · ligand · 5 copies · chains C, B, A, D, E
- MG · Magnesium ion · metal · 5 copies · chains C, B, A, D, E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
19 pockets found on a 1 Å grid, 18 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 559 | 0.85 | 0.90 | 82 | ADP, MG |
| 2 | 501 | 0.85 | 0.91 | 78 | ADP, MG |
| 3 | 577 | 0.84 | 0.89 | 76 | empty |
| 4 | 360 | 0.82 | 0.91 | 65 | ADP, MG |
| 5 | 596 | 0.82 | 0.87 | 84 | empty |
Interfaces
17 interfaces between chains.
- C–A · 1209 Ų buried · 7 hydrogen bonds · protein-protein
- B–D · 1207 Ų buried · 7 hydrogen bonds · protein-protein
- C–E · 1201 Ų buried · 8 hydrogen bonds · protein-protein
- E–F · 685 Ų buried · 3 hydrogen bonds · protein-protein
- C–F · 667 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 modified (methylation).
Compared structures
- 7QIM · In situ structure of nebulin bound to actin filament in skeletal sarcomere · the same entry in another collection · chain C against C, 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 A0A7K7PM04
- Elsewhere: RCSB PDB 7QIM · PDBe 7QIM · UniProt A0A7K7PM04
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.