MolNFT v1 · #119667 · protein
Mr structure of the binary mosquito larvicide binab at pH 5
5G37 · 41.9 kda insecticidal toxin: “Mr structure of the binary mosquito larvicide binab at pH 5”. X-ray diffraction, 6 pockets (best druggability 0.81). MolNFT v1 #119667 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5G37
- Type
- protein
- Length
- 784 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 41.9 kda insecticidal toxin; Larvicidal toxin 51 kda protein
- UniProt
- P06575, P10565
- Pockets
- 6 · best druggability 0.81
Structure
x-ray diffraction · 2 distinct chains · 12% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 41.9 kda insecticidal toxin | protein | 364 | 13% helix, 43% strand | P06575 |
| B | Larvicidal toxin 51 kda protein | protein | 420 | 11% helix, 41% strand | P10565 |
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1086 | 0.81 | 0.82 | 89 | empty |
| 2 | 885 | 0.76 | 0.79 | 87 | empty |
| 3 | 127 | 0.54 | 0.82 | 22 | empty |
| 4 | 108 | 0.36 | 0.74 | 21 | empty |
| 5 | 73 | 0.36 | 0.77 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 1960 Ų buried · 21 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 5G37 · MR structure of the binary mosquito larvicide BinAB at pH 5 · the same entry in another collection · chain A against A, TM-score 1.00
- P06575 · AlphaFold monomer V2.0 prediction for binary larvicide subunit bina (P06575) · a predicted model of the same protein · chain A against A, TM-score 0.94
- P10565 · AlphaFold monomer V2.0 prediction for binary larvicide subunit binb (P10565) · a predicted model of the same protein · chain B against A, TM-score 0.89
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 P06575
- Every structure of UniProt P10565
- Elsewhere: RCSB PDB 5G37 · PDBe 5G37 · UniProt P06575 · UniProt P10565
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