MolNFT v1 · #143223 · protein
Oxidized SHP2 forms a disulfide bond between CYS367 and CYS459
6ATD · Tyrosine-protein phosphatase non-receptor type 11: “Oxidized SHP2 forms a disulfide bond between CYS367 and CYS459”. X-ray diffraction, 1 ligand (PO4), 12 pockets (best druggability 0.68). MolNFT v1 #143223 on GenesisL1: 3D…
- PDB
- 6ATD
- Type
- protein
- Length
- 990 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tyrosine-protein phosphatase non-receptor type 11
- EC
- 3.1.3.48
- UniProt
- Q06124
- Ligands
- PO4
- Pockets
- 12 · best druggability 0.68
Structure
x-ray diffraction · 2 distinct chains · 29% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Tyrosine-protein phosphatase non-receptor type 11 (EC 3.1.3.48) | protein | 496 | 30% helix, 25% strand | Q06124 |
| B | Tyrosine-protein phosphatase non-receptor type 11 (EC 3.1.3.48) | protein | 494 | 29% helix, 25% strand | Q06124 |
Ligands and binding sites
- PO4 · Phosphate ion · ion · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
12 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 824 | 0.68 | 0.75 | 79 | empty |
| 2 | 351 | 0.61 | 0.78 | 30 | empty |
| 3 | 329 | 0.60 | 0.77 | 36 | empty |
| 4 | 115 | 0.47 | 0.79 | 22 | empty |
| 5 | 130 | 0.47 | 0.78 | 23 | empty |
Interfaces
1 interface between chains.
- A–B · 154 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 6ATD · Oxidized SHP2 forms a disulfide bond between Cys367 and Cys459 · the same entry in another collection · chain A against A, TM-score 1.00
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 Q06124
- Elsewhere: RCSB PDB 6ATD · PDBe 6ATD · UniProt Q06124
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