MolNFT v1 · #184758 · protein
Structure of the V. vulnificus exoy-G-actin-profilin complex
7P1H · MALTOSE/MALTODEXTRIN-binding periplasmic PROTEIN,RTX-toxin: “Structure of the V. vulnificus exoy-G-actin-profilin complex”. Electron microscopy, 2 ligands (ATP, CA), 13 pockets (best druggability 0.83). MolNFT v1 #184758 on…
- PDB
- 7P1H
- Type
- protein
- Length
- 898 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- MALTOSE/MALTODEXTRIN-binding periplasmic PROTEIN,RTX-toxin; Actin, cytoplasmic 1…
- UniProt
- A0A0F6NGV0, P60709, P07737
- Ligands
- ATP, CA
- Pockets
- 13 · best druggability 0.83
Structure
electron microscopy · 3 distinct chains · 40% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | MALTOSE/MALTODEXTRIN-binding periplasmic PROTEIN,RTX-toxin | protein | 395 | 41% helix, 18% strand | A0A0F6NGV0 |
| B | Actin, cytoplasmic 1 | protein | 365 | 44% helix, 19% strand | P60709 |
| P | Profilin-1 | protein | 138 | 30% helix, 32% strand | P07737 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 881 | 0.83 | 0.85 | 101 | CA, ATP |
| 2 | 162 | 0.75 | 0.92 | 34 | empty |
| 3 | 391 | 0.67 | 0.80 | 52 | empty |
| 4 | 148 | 0.66 | 0.87 | 26 | empty |
| 5 | 318 | 0.63 | 0.79 | 28 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1388 Ų buried · 13 hydrogen bonds · protein-protein
- B–P · 1098 Ų buried · 15 hydrogen bonds · protein-protein
- A–P · 136 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 modified (methylation).
Compared structures
- 7P1H · Structure of the V. vulnificus ExoY-G-actin-profilin complex · the same entry in another collection · chain A against A, TM-score 1.00
- P60709 · AlphaFold monomer V2.0 prediction for actin, cytoplasmic 1 (P60709) · a predicted model of the same protein · chain B against A, TM-score 0.96
- P07737 · AlphaFold monomer V2.0 prediction for profilin-1 (P07737) · a predicted model of the same protein · chain P against A, TM-score 0.94
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 A0A0F6NGV0
- Every structure of UniProt P60709
- Every structure of UniProt P07737
- Elsewhere: RCSB PDB 7P1H · PDBe 7P1H · UniProt A0A0F6NGV0 · UniProt P60709 · UniProt P07737
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