Research workbench
Crystal structure of anti-emmprin antibody 5F6 Fab
Analyse Crystal structure of anti-emmprin antibody 5F6 Fab in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3NZH
- Type
- protein
- Length
- 436 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5F6 light chain; 5F6 heavy chain
- Ligands
- CO
- Pockets
- 4 · best druggability 0.51
Structure
x-ray diffraction · 2 distinct chains · 9% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| L | 5F6 light chain | protein | 214 | 6% helix, 51% strand | — |
| H | 5F6 heavy chain | protein | 222 | 13% helix, 50% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 358 | 0.51 | 0.72 | 44 | empty |
| 2 | 60 | 0.37 | 0.79 | 15 | empty |
| 3 | 77 | 0.30 | 0.73 | 16 | empty |
| 4 | 62 | 0.30 | 0.74 | 15 | empty |
Interfaces
1 interface between chains.
- L–H · 1837 Ų buried · 17 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 3NZH · Crystal structure of anti-emmprin antibody 5F6 FAB · 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 3NZH · PDBe 3NZH
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.