Research workbench
Crystal structure of the tandem phosphatase domain of rptp CD45
Analyse Crystal structure of the tandem phosphatase domain of rptp CD45 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1YGR
- Type
- protein
- Length
- 1,160 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CD45 protein tyrosine phosphatase; T-cell receptor CD3 zeta itam-1
- UniProt
- P08575, P20963
- Pockets
- 7 · best druggability 0.80
Structure
x-ray diffraction · 3 distinct chains · 31% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CD45 protein tyrosine phosphatase | protein | 574 | 31% helix, 20% strand | P08575 |
| B | CD45 protein tyrosine phosphatase | protein | 574 | 31% helix, 20% strand | P08575 |
| C, D | T-cell receptor CD3 zeta itam-1 | protein | 6 | 0% helix, 0% strand | P20963 |
Pockets
7 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 434 | 0.80 | 0.88 | 45 | empty |
| 2 | 487 | 0.78 | 0.86 | 37 | empty |
| 3 | 165 | 0.63 | 0.85 | 29 | empty |
| 4 | 146 | 0.58 | 0.83 | 18 | empty |
| 5 | 54 | 0.54 | 0.89 | 16 | empty |
Interfaces
3 interfaces between chains.
- A–C · 514 Ų buried · 15 hydrogen bonds · protein-protein
- B–D · 482 Ų buried · 18 hydrogen bonds · protein-protein
- A–B · 42 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 28 modified (engineered, phosphorylation).
Compared structures
- 1YGR · Crystal structure of the tandem phosphatase domain of RPTP CD45 · the same entry in another collection · chain D against D, TM-score 1.00
- P08575 · AlphaFold monomer V2.0 prediction for receptor-type tyrosine-protein phosphatase C… · a predicted model of the same protein · chain B against A, TM-score 0.99
- P20963 · P20963 · a predicted model of the same protein · chain C against A, TM-score 0.51
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 P08575
- Every structure of UniProt P20963
- Elsewhere: RCSB PDB 1YGR · PDBe 1YGR · UniProt P08575 · UniProt P20963
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.