MolNFT v1 · #187805 · protein
T-plastin-F-actin complex, pre-bundling intermediate state
7SXA · Plastin-3: “T-plastin-F-actin complex, pre-bundling intermediate state”. Electron microscopy, 2 ligands (ADP, MG), 17 pockets (best druggability 0.81). MolNFT v1 #187805 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7SXA
- Type
- protein
- Length
- 1,431 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Plastin-3; Actin, alpha skeletal muscle
- UniProt
- P13797, P68139
- Ligands
- ADP, MG
- Pockets
- 17 · best druggability 0.81
Structure
electron microscopy · 2 distinct chains · 49% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Plastin-3 | protein | 321 | 55% helix, 0% strand | P13797 |
| C, B, D | Actin, alpha skeletal muscle | protein | 370 | 44% helix, 20% strand | P68139 |
Ligands and binding sites
- ADP · Adenosine-5'-diphosphate · ligand · 3 copies · chains C, B, D
- MG · Magnesium ion · metal · 3 copies · chains C, B, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
17 pockets found on a 1 Å grid, 12 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 233 | 0.81 | 0.94 | 38 | empty |
| 2 | 551 | 0.81 | 0.87 | 100 | empty |
| 3 | 1094 | 0.79 | 0.81 | 94 | empty |
| 4 | 338 | 0.78 | 0.89 | 57 | ADP, MG |
| 5 | 327 | 0.77 | 0.88 | 52 | ADP, MG |
Interfaces
5 interfaces between chains.
- B–D · 1166 Ų buried · 12 hydrogen bonds · protein-protein
- A–B · 508 Ų buried · 2 hydrogen bonds · protein-protein
- C–B · 421 Ų buried · 5 hydrogen bonds · protein-protein
- C–D · 421 Ų buried · 5 hydrogen bonds · protein-protein
- A–D · 355 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 modified (methylation).
Compared structures
- 7SXA · T-Plastin-F-actin complex, pre-bundling intermediate state · the same entry in another collection · chain D against D, TM-score 1.00
- P68139 · AlphaFold monomer V2.0 prediction for actin, alpha skeletal muscle (P68139) · a predicted model of the same protein · chain C against A, TM-score 0.96
- P13797 · AlphaFold monomer V2.0 prediction for plastin-3 (P13797) · a predicted model of the same protein · chain A against A, TM-score 0.62
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 P13797
- Every structure of UniProt P68139
- Elsewhere: RCSB PDB 7SXA · PDBe 7SXA · UniProt P13797 · UniProt P68139
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