Research workbench
Catalytic domain of the proto-oncogene tyrosine-protein kinase mer
Analyse Catalytic domain of the proto-oncogene tyrosine-protein kinase mer in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2P0C
- Type
- protein
- Length
- 497 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Proto-oncogene tyrosine-protein kinase mer
- EC
- 2.7.10.1
- UniProt
- Q12866
- Ligands
- ANP, MG
- Pockets
- 4 · best druggability 0.70
Structure
x-ray diffraction · 2 distinct chains · 40% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Proto-oncogene tyrosine-protein kinase mer (EC 2.7.10.1) | protein | 249 | 40% helix, 17% strand | Q12866 |
| B | Proto-oncogene tyrosine-protein kinase mer (EC 2.7.10.1) | protein | 248 | 40% helix, 18% strand | Q12866 |
Ligands and binding sites
- ANP · Phosphoaminophosphonic acid-adenylate ester · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · 3 copies · chains A, B
- BME · Beta-mercaptoethanol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 664 | 0.70 | 0.77 | 75 | MG, ANP |
| 2 | 341 | 0.63 | 0.79 | 32 | BME |
| 3 | 74 | 0.54 | 0.86 | 19 | empty |
| 4 | 225 | 0.53 | 0.77 | 25 | ANP |
Interfaces
1 interface between chains.
- A–B · 1053 Ų buried · 15 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 covalent (additive adduct).
Compared structures
- 2P0C · Catalytic Domain of the Proto-oncogene Tyrosine-protein Kinase MER · the same entry in another collection · chain A against A, TM-score 1.00
- Q12866 · AlphaFold monomer V2.0 prediction for tyrosine-protein kinase mer (Q12866) · a predicted model of the same protein · chain A against A, TM-score 0.94
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 Q12866
- Elsewhere: RCSB PDB 2P0C · PDBe 2P0C · UniProt Q12866
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