Research workbench
Crystal structure of human il-18 complexed to murine reference antibody 125-2H Fab
Analyse Crystal structure of human il-18 complexed to murine reference antibody 125-2H… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2VXT
- Type
- protein
- Length
- 576 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Murine IgG 125-2H; Interleukin-18
- UniProt
- Q14116
- Ligands
- MG, CL
- Pockets
- 4 · best druggability 0.41
Structure
x-ray diffraction · 3 distinct chains · 6% helix, 52% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| H | Murine IgG 125-2H | protein | 207 | 6% helix, 53% strand | — |
| I | Interleukin-18 | protein | 156 | 8% helix, 54% strand | Q14116 |
| L | Murine IgG 125-2H | protein | 213 | 6% helix, 51% 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, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 176 | 0.41 | 0.73 | 26 | empty |
| 2 | 114 | 0.35 | 0.73 | 17 | empty |
| 3 | 52 | 0.30 | 0.76 | 12 | empty |
| 4 | 66 | 0.29 | 0.74 | 18 | empty |
Interfaces
3 interfaces between chains.
- H–L · 1596 Ų buried · 13 hydrogen bonds · protein-protein
- H–I · 656 Ų buried · 14 hydrogen bonds · protein-protein
- I–L · 581 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 2VXT · Crystal structure of human IL-18 complexed to murine reference antibody 125-2H Fab · the same entry in another collection · chain H against H, TM-score 1.00
- Q14116 · AlphaFold monomer V2.0 prediction for interleukin-18 (Q14116) · a predicted model of the same protein · chain I against A, TM-score 0.96
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 Q14116
- Elsewhere: RCSB PDB 2VXT · PDBe 2VXT · UniProt Q14116
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