Research workbench
Complex structure of human IL2 mutant, proleukin, with Fab fragment of NARA1 antibody
Analyse Complex structure of human IL2 mutant, proleukin, with Fab fragment of NARA1… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5LQB
- Type
- protein
- Length
- 564 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Interleukin-2; Anti-HIL2 Fab fragment heavy chain; Anti-HIL2 Fab fragment light chain
- UniProt
- P60568
- Pockets
- 6 · best druggability 0.55
Structure
x-ray diffraction · 3 distinct chains · 19% helix, 43% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Interleukin-2 | protein | 128 | 63% helix, 3% strand | P60568 |
| H | Anti-HIL2 Fab fragment heavy chain | protein | 219 | 7% helix, 53% strand | — |
| L | Anti-HIL2 Fab fragment light chain | protein | 217 | 6% helix, 56% strand | — |
Pockets
6 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 348 | 0.55 | 0.74 | 51 | empty |
| 2 | 154 | 0.48 | 0.78 | 26 | empty |
| 3 | 131 | 0.44 | 0.76 | 22 | empty |
| 4 | 147 | 0.43 | 0.75 | 22 | empty |
| 5 | 62 | 0.42 | 0.82 | 22 | empty |
Interfaces
3 interfaces between chains.
- H–L · 1903 Ų buried · 16 hydrogen bonds · protein-protein
- A–H · 617 Ų buried · 8 hydrogen bonds · protein-protein
- A–L · 434 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 5LQB · Complex structure of human IL2 mutant, Proleukin, with Fab fragment of NARA1 antibody · the same entry in another collection · chain A against A, TM-score 1.00
- P60568 · AlphaFold monomer V2.0 prediction for interleukin-2 (P60568) · a predicted model of the same protein · chain A against A, TM-score 0.91
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 P60568
- Elsewhere: RCSB PDB 5LQB · PDBe 5LQB · UniProt P60568
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