MolNFT v1 · #154664 · protein
Crystal structure of ptprd phosphatase domain in complex with liprin- ALPHA3 tandem SAM domains
6KIP · Receptor-type tyrosine-protein phosphatase delta: “Crystal structure of ptprd phosphatase domain in complex with liprin- ALPHA3 tandem SAM domains”. X-ray diffraction, 5 pockets (best druggability 0.73). MolNFT v1 #154664 on…
- PDB
- 6KIP
- Type
- protein
- Length
- 565 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Receptor-type tyrosine-protein phosphatase delta; Liprin-alpha-3
- EC
- 3.1.3.48
- UniProt
- Q64487, P60469
- Pockets
- 5 · best druggability 0.73
Structure
x-ray diffraction · 2 distinct chains · 50% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Receptor-type tyrosine-protein phosphatase delta (EC 3.1.3.48) | protein | 293 | 36% helix, 22% strand | Q64487 |
| B | Liprin-alpha-3 | protein | 272 | 65% helix, 1% strand | P60469 |
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 907 | 0.73 | 0.77 | 88 | empty |
| 2 | 177 | 0.57 | 0.81 | 24 | empty |
| 3 | 87 | 0.37 | 0.76 | 22 | empty |
| 4 | 51 | 0.28 | 0.75 | 13 | empty |
| 5 | 52 | 0.28 | 0.75 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 1218 Ų buried · 19 hydrogen bonds · protein-protein
Compared structures
- 6KIP · Crystal structure of PTPRD phosphatase domain in complex with Liprin-alpha3 tandem SAM… · the same entry in another collection · chain A against A, TM-score 1.00
- Q64487 · AlphaFold monomer V2.0 prediction for receptor-type tyrosine-protein phosphatase delta… · a predicted model of the same protein · chain A against A, TM-score 0.98
- P60469 · AlphaFold monomer V2.0 prediction for liprin-alpha-3 (P60469) · a predicted model of the same protein · chain B against A, TM-score 0.97
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 Q64487
- Every structure of UniProt P60469
- Elsewhere: RCSB PDB 6KIP · PDBe 6KIP · UniProt Q64487 · UniProt P60469
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