Research workbench
Crystal structure of activated receptor tyrosine kinase in complex with substrates
Analyse Crystal structure of activated receptor tyrosine kinase in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3GQI
- Type
- protein
- Length
- 533 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Basic fibroblast growth factor receptor 1; Phospholipase C-gamma-1
- EC
- 2.7.10.1, 3.1.4.11
- UniProt
- P11362, P10686
- Ligands
- DVT, ACP, MG
- Pockets
- 7 · best druggability 0.73
Structure
x-ray diffraction · 2 distinct chains · 30% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Basic fibroblast growth factor receptor 1 (EC 2.7.10.1) | protein | 307 | 35% helix, 17% strand | P11362 |
| B | Phospholipase C-gamma-1 (EC 3.1.4.11) | protein | 226 | 24% helix, 31% strand | P10686 |
Ligands and binding sites
- DVT · Decavanadate · ligand · chains A
- ACP · Phosphomethylphosphonic acid adenylate ester · ligand · chains A
- MG · Magnesium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 564 | 0.73 | 0.81 | 51 | ACP, MG |
| 2 | 240 | 0.53 | 0.76 | 36 | empty |
| 3 | 85 | 0.47 | 0.82 | 17 | empty |
| 4 | 116 | 0.46 | 0.79 | 23 | empty |
| 5 | 50 | 0.35 | 0.79 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 1108 Ų buried · 20 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 modified (phosphorylation).
Compared structures
- 3GQI · Crystal Structure of activated receptor tyrosine kinase in complex with substrates · the same entry in another collection · chain B against B, TM-score 1.00
- P11362 · AlphaFold monomer V2.0 prediction for fibroblast growth factor receptor 1 (P11362) · a predicted model of the same protein · chain A against A, TM-score 0.93
- P10686 · AlphaFold monomer V2.0 prediction for 1-phosphatidylinositol 4,5-bisphosphate… · a predicted model of the same protein · chain B against A, TM-score 0.76
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 P11362
- Every structure of UniProt P10686
- Elsewhere: RCSB PDB 3GQI · PDBe 3GQI · UniProt P11362 · UniProt P10686
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.