Research workbench
Crystal structure of anopheline anti-platelet protein with Fab antibody
Analyse Crystal structure of anopheline anti-platelet protein with Fab antibody in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4OKV
- Type
- protein
- Length
- 996 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Heavy chain of 8H7 mab; Light chain of 8H7 mab; Anti-platelet aggregation protein
- UniProt
- Q7YT37
- Pockets
- 13 · best druggability 0.67
Structure
x-ray diffraction · 5 distinct chains · 19% helix, 43% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Heavy chain of 8H7 mab | protein | 214 | 7% helix, 50% strand | — |
| B, D | Light chain of 8H7 mab | protein | 218 | 6% helix, 52% strand | — |
| C | Heavy chain of 8H7 mab | protein | 215 | 10% helix, 51% strand | — |
| E | Anti-platelet aggregation protein | protein | 65 | 77% helix, 0% strand | Q7YT37 |
| F | Anti-platelet aggregation protein | protein | 66 | 74% helix, 0% strand | Q7YT37 |
Pockets
13 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 814 | 0.67 | 0.75 | 70 | empty |
| 2 | 756 | 0.66 | 0.75 | 61 | empty |
| 3 | 85 | 0.53 | 0.85 | 17 | empty |
| 4 | 80 | 0.51 | 0.84 | 21 | empty |
| 5 | 77 | 0.48 | 0.83 | 24 | empty |
Interfaces
7 interfaces between chains.
- C–D · 1765 Ų buried · 20 hydrogen bonds · protein-protein
- A–B · 1701 Ų buried · 19 hydrogen bonds · protein-protein
- E–F · 994 Ų buried · 5 hydrogen bonds · protein-protein
- A–F · 503 Ų buried · 9 hydrogen bonds · protein-protein
- C–E · 476 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 disulfide (disulfide).
Compared structures
- 4OKV · Crystal structure of anopheline anti-platelet protein with Fab antibody · the same entry in another collection · chain A against A, TM-score 1.00
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 Q7YT37
- Elsewhere: RCSB PDB 4OKV · PDBe 4OKV · UniProt Q7YT37
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