MolNFT v1 · #121634 · protein
Crystal structure of human germline antibody IGHV1-69/IGKV4-1
5I18 · Fab light chain: “Crystal structure of human germline antibody IGHV1-69/IGKV4-1”. X-ray diffraction, 2 pockets (best druggability 0.67). MolNFT v1 #121634 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5I18
- Type
- protein
- Length
- 430 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fab light chain; Fab heavy chain
- Pockets
- 2 · best druggability 0.67
Structure
x-ray diffraction · 2 distinct chains · 8% helix, 52% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| L | Fab light chain | protein | 219 | 6% helix, 52% strand | — |
| H | Fab heavy chain | protein | 211 | 10% helix, 51% strand | — |
Ligands and binding sites
- GOL · Glycerol · additive · 4 copies · chains L, H
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 747 | 0.67 | 0.75 | 73 | GOL |
| 2 | 102 | 0.34 | 0.73 | 23 | empty |
Interfaces
1 interface between chains.
- L–H · 1675 Ų buried · 15 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 5I18 · Crystal structure of human germline antibody IGHV1-69/IGKV4-1 · 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 5I18 · PDBe 5I18
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.