Research workbench
Crystal structure of the his domain protein tyrosine phosphatase (hd- PTP/PTPN23) BRO1 domain (sara complex structure)
Analyse Crystal structure of the his domain protein tyrosine phosphatase (hd… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5MJY
- Type
- protein
- Length
- 1,477 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tyrosine-protein phosphatase non-receptor type 23; Zinc finger fyve domain-containing…
- EC
- 3.1.3.48
- UniProt
- Q9H3S7, O95405
- Pockets
- 19 · best druggability 0.83
Structure
x-ray diffraction · 4 distinct chains · 68% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | Tyrosine-protein phosphatase non-receptor type 23 (EC 3.1.3.48) | protein | 358 | 67% helix, 3% strand | Q9H3S7 |
| B | Tyrosine-protein phosphatase non-receptor type 23 (EC 3.1.3.48) | protein | 361 | 67% helix, 2% strand | Q9H3S7 |
| C | Tyrosine-protein phosphatase non-receptor type 23 (EC 3.1.3.48) | protein | 360 | 68% helix, 3% strand | Q9H3S7 |
| E, F | Zinc finger fyve domain-containing protein 9 | protein | 20 | 85% helix, 0% strand | O95405 |
Pockets
19 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 844 | 0.83 | 0.85 | 96 | empty |
| 2 | 997 | 0.82 | 0.83 | 113 | empty |
| 3 | 624 | 0.72 | 0.79 | 65 | empty |
| 4 | 182 | 0.49 | 0.76 | 28 | empty |
| 5 | 74 | 0.49 | 0.83 | 17 | empty |
Interfaces
10 interfaces between chains.
- B–F · 889 Ų buried · 9 hydrogen bonds · protein-protein
- C–E · 884 Ų buried · 7 hydrogen bonds · protein-protein
- A–B · 823 Ų buried · 12 hydrogen bonds · protein-protein
- C–D · 779 Ų buried · 10 hydrogen bonds · protein-protein
- A–E · 573 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 5MJY · Crystal structure of the His Domain Protein Tyrosine Phosphatase (HD-PTP/PTPN23) Bro1… · the same entry in another collection · chain F against F, TM-score 1.00
- Q9H3S7 · AlphaFold monomer V2.0 prediction for tyrosine-protein phosphatase non-receptor type 23… · a predicted model of the same protein · chain B against A, TM-score 0.99
- O95405 · AlphaFold monomer V2.0 prediction for zinc finger fyve domain- containing protein 9… · a predicted model of the same protein · chain E against A, TM-score 0.49
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 Q9H3S7
- Every structure of UniProt O95405
- Elsewhere: RCSB PDB 5MJY · PDBe 5MJY · UniProt Q9H3S7 · UniProt O95405
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