Research workbench
Cryoem structure of mical oxidized actin (class 1)
Analyse Cryoem structure of mical oxidized actin (class 1) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6AV9
- Type
- protein
- Length
- 1,101 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Actin, alpha skeletal muscle
- UniProt
- P68135
- Ligands
- ADP
- Pockets
- 6 · best druggability 0.82
Structure
electron microscopy · 1 distinct chain · 32% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C, A, B | Actin, alpha skeletal muscle | protein | 367 | 32% helix, 12% strand | P68135 |
Ligands and binding sites
- ADP · Adenosine-5'-diphosphate · ligand · 3 copies · chains C, A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 976 | 0.82 | 0.84 | 118 | empty |
| 2 | 189 | 0.73 | 0.89 | 44 | ADP |
| 3 | 186 | 0.71 | 0.89 | 42 | ADP |
| 4 | 198 | 0.71 | 0.88 | 47 | ADP |
| 5 | 141 | 0.43 | 0.75 | 27 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1125 Ų buried · 17 hydrogen bonds · protein-protein
- C–A · 461 Ų buried · 6 hydrogen bonds · protein-protein
- C–B · 451 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 9 modified (nonstandard, methylation).
Compared structures
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 P68135
- Elsewhere: RCSB PDB 6AV9 · PDBe 6AV9 · UniProt P68135
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