Research workbench
Acanthamoeba actin complex with spir domain D
Analyse Acanthamoeba actin complex with spir domain D in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4EFH
- Type
- protein
- Length
- 384 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Actin-1; Protein spire
- UniProt
- P02578, Q9U1K1
- Ligands
- ADP, CA
- Pockets
- 2 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 43% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Actin-1 | protein | 364 | 43% helix, 20% strand | P02578 |
| B | Protein spire | protein | 20 | 55% helix, 5% strand | Q9U1K1 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 467 | 0.74 | 0.83 | 52 | CA, ADP |
| 2 | 203 | 0.59 | 0.81 | 30 | empty |
Interfaces
1 interface between chains.
- A–B · 856 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 4EFH · Acanthamoeba Actin complex with Spir domain D · the same entry in another collection · chain A against A, TM-score 1.00
- P02578 · AlphaFold monomer V2.0 prediction for actin-1 (P02578) · a predicted model of the same protein · chain A against A, TM-score 0.97
- Q9U1K1 · AlphaFold monomer V2.0 prediction for protein spire (Q9U1K1) · a predicted model of the same protein · chain B against A, TM-score 0.51
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 P02578
- Every structure of UniProt Q9U1K1
- Elsewhere: RCSB PDB 4EFH · PDBe 4EFH · UniProt P02578 · UniProt Q9U1K1
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