Tyrosine-protein phosphatase non-receptor type 4 (PTPN4) is a 926-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P29074.
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The mean pLDDT of this model is 77.2 (confident overall). pLDDT is AlphaFold's per-residue confidence score from 0 to 100. In MolViewer, choose the B-factor color scheme to color the model by pLDDT, because AlphaFold stores it in the B-factor column.
| pLDDT band | Meaning | Share of residues |
|---|---|---|
| Above 90 | Very high: backbone and side chains are usually accurate | 55% |
| 70 to 90 | Confident: backbone generally right | 18% |
| 50 to 70 | Low: treat with caution | 5% |
| Below 50 | Very low: often disordered regions | 22% |
What pLDDT means and how to read it
Phosphatase that plays a role in immunity, learning, synaptic plasticity or cell homeostasis (PubMed:25825441, PubMed:27246854). Regulates neuronal cell homeostasis by protecting neurons against apoptosis (PubMed:20086240). Negatively regulates TLR4-induced interferon beta production by dephosphorylating adapter TICAM2 and inhibiting subsequent TRAM-TRIF interaction (PubMed:25825441). Also dephosphorylates the immunoreceptor tyrosine-based activation motifs/ITAMs of the TCR zeta subunit and thereby negatively regulates TCR-mediated signaling pathway (By similarity). May act at junctions between the membrane and the cytoskeleton
Interacts with MAPK12 (via C-terminus); this interaction abolishes PTPN4 catalytic autoinhibition and thus activates the phosphatase activity
Cell membrane, Cytoplasm, cytoskeleton, Cytoplasm
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 3NFK | X-ray | 1.43 Å | A/B=499-604 |
| 2VPH | X-ray | 1.9 Å | A/B=513-610 |
| 3NFL | X-ray | 1.91 Å | A/B/C/D=499-604 |
| 5EYZ | X-ray | 2.09 Å | A/B/C/D=499-604 |
| 5EZ0 | X-ray | 2.35 Å | A/B/C/D=499-604 |
| 2I75 | X-ray | 2.45 Å | A=611-926 |
| 7VZE | X-ray | 2.88 Å | A/B/C/D=513-603 |
| 2CS5 | NMR | A=507-612 |
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