MolNFT v1 · #170988 · protein
Rabbit muscle actin in complex with adf-H and ATP-atto-488
6YP9 · Actin, alpha skeletal muscle: “Rabbit muscle actin in complex with adf-H and ATP-atto-488”. X-ray diffraction, 2 ligands (ATP, CA), 4 pockets (best druggability 0.73). MolNFT v1 #170988 on GenesisL1: 3D structure, binding sites and…
- PDB
- 6YP9
- Type
- protein
- Length
- 502 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Actin, alpha skeletal muscle; Twinfilin-1
- UniProt
- P68135, Q91YR1
- Ligands
- ATP, CA
- Pockets
- 4 · best druggability 0.73
Structure
x-ray diffraction · 2 distinct chains · 42% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Actin, alpha skeletal muscle | protein | 362 | 45% helix, 20% strand | P68135 |
| B | Twinfilin-1 | protein | 140 | 36% helix, 29% strand | Q91YR1 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 357 | 0.73 | 0.85 | 52 | ATP, CA |
| 2 | 108 | 0.58 | 0.85 | 22 | empty |
| 3 | 158 | 0.52 | 0.79 | 34 | empty |
| 4 | 66 | 0.51 | 0.86 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 1259 Ų buried · 18 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 modified (methylation).
Compared structures
- 6YP9 · Rabbit muscle actin in complex with ADF-H and ATP-ATTO-488 · the same entry in another collection · chain A against A, TM-score 1.00
- Q91YR1 · AlphaFold monomer V2.0 prediction for twinfilin-1 (Q91YR1) · a predicted model of the same protein · chain B against A, TM-score 0.99
- P68135 · AlphaFold monomer V2.0 prediction for actin, alpha skeletal muscle (P68135) · a predicted model of the same protein · chain A against A, TM-score 0.93
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
- Every structure of UniProt Q91YR1
- Elsewhere: RCSB PDB 6YP9 · PDBe 6YP9 · UniProt P68135 · UniProt Q91YR1
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