Research workbench
ALK:ALKAL2 complex
Analyse ALK:ALKAL2 complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7NWZ
- Type
- protein
- Length
- 1,348 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ALK and ltk ligand 2; ALK tyrosine kinase receptor
- EC
- 2.7.10.1
- UniProt
- Q6UX46, Q9UM73
- Ligands
- NAG
- Pockets
- 11 · best druggability 0.83
Structure
x-ray diffraction · 3 distinct chains · 14% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| D, C | ALK and ltk ligand 2 | protein | 58 | 64% helix, 0% strand | Q6UX46 |
| F, E | ALK tyrosine kinase receptor (EC 2.7.10.1) | protein | 307 | 9% helix, 22% strand | Q9UM73 |
| B, A | ALK tyrosine kinase receptor (EC 2.7.10.1) | protein | 309 | 9% helix, 22% strand | Q9UM73 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 6 copies · chains F, E, B, A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 685 | 0.83 | 0.87 | 90 | empty |
| 2 | 863 | 0.82 | 0.84 | 110 | empty |
| 3 | 159 | 0.66 | 0.87 | 30 | empty |
| 4 | 83 | 0.65 | 0.91 | 25 | empty |
| 5 | 91 | 0.48 | 0.82 | 16 | empty |
Interfaces
9 interfaces between chains.
- A–C · 827 Ų buried · 10 hydrogen bonds · protein-protein
- B–A · 816 Ų buried · 2 hydrogen bonds · protein-protein
- D–E · 781 Ų buried · 13 hydrogen bonds · protein-protein
- D–F · 715 Ų buried · 2 hydrogen bonds · protein-protein
- B–C · 695 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 disulfide, 6 glycan (disulfide, N-glycosylation).
Compared structures
- 7NWZ · ALK:ALKAL2 complex · the same entry in another collection · chain C against C, TM-score 1.00
- Q9UM73 · AlphaFold monomer V2.0 prediction for ALK tyrosine kinase receptor (Q9UM73) · a predicted model of the same protein · chain E against A, TM-score 0.98
- Q6UX46 · AlphaFold monomer V2.0 prediction for ALK and ltk ligand 2 (Q6UX46) · a predicted model of the same protein · chain C against A, TM-score 0.93
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 Q6UX46
- Every structure of UniProt Q9UM73
- Elsewhere: RCSB PDB 7NWZ · PDBe 7NWZ · UniProt Q6UX46 · UniProt Q9UM73
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