MolNFT v1 · #122262 · protein
Crystal structure of bovine Fab E03
5IJV · Bovine Fab E03 light chain: “Crystal structure of bovine Fab E03”. X-ray diffraction, 20 pockets (best druggability 0.73). MolNFT v1 #122262 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5IJV
- Type
- protein
- Length
- 1,842 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bovine Fab E03 light chain; Bovine Fab E03 heavy chain
- Pockets
- 20 · best druggability 0.73
Structure
x-ray diffraction · 5 distinct chains · 5% helix, 54% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| L, A, C, E | Bovine Fab E03 light chain | protein | 213 | 8% helix, 52% strand | — |
| H | Bovine Fab E03 heavy chain | protein | 246 | 5% helix, 56% strand | — |
| B | Bovine Fab E03 heavy chain | protein | 248 | 5% helix, 55% strand | — |
| D | Bovine Fab E03 heavy chain | protein | 247 | 4% helix, 55% strand | — |
| F | Bovine Fab E03 heavy chain | protein | 249 | 5% helix, 53% strand | — |
Pockets
20 pockets found on a 1 Å grid, 11 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 654 | 0.73 | 0.80 | 78 | empty |
| 2 | 454 | 0.68 | 0.80 | 52 | empty |
| 3 | 642 | 0.66 | 0.76 | 52 | empty |
| 4 | 759 | 0.64 | 0.73 | 67 | empty |
| 5 | 408 | 0.62 | 0.77 | 53 | empty |
Interfaces
15 interfaces between chains.
- A–B · 2085 Ų buried · 14 hydrogen bonds · protein-protein
- E–F · 2079 Ų buried · 13 hydrogen bonds · protein-protein
- L–H · 2057 Ų buried · 14 hydrogen bonds · protein-protein
- C–D · 2055 Ų buried · 19 hydrogen bonds · protein-protein
- H–B · 478 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 27 disulfide (disulfide).
Compared structures
- 5IJV · Crystal structure of bovine Fab E03 · the same entry in another collection · chain L against L, 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
- Elsewhere: RCSB PDB 5IJV · PDBe 5IJV
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