Programmed cell death protein 1 (PDCD1) is a 288-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q15116.
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The mean pLDDT of this model is 74.1 (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 | 36% |
| 70 to 90 | Confident: backbone generally right | 21% |
| 50 to 70 | Low: treat with caution | 27% |
| Below 50 | Very low: often disordered regions | 16% |
What pLDDT means and how to read it
Inhibitory receptor on antigen activated T-cells that plays a critical role in induction and maintenance of immune tolerance to self (PubMed:21276005, PubMed:31754127, PubMed:32184441, PubMed:37208329). Delivers inhibitory signals upon binding to ligands CD274/PDCD1L1 and CD273/PDCD1LG2 (PubMed:21276005, PubMed:26602187). Following T-cell receptor (TCR) engagement, PDCD1 associates with TCR-CD3 in the immunological synapse and directly inhibits T-cell activation (PubMed:32184441). Suppresses T-cell activation through the recruitment of PTPN11/SHP-2: following ligand-binding, PDCD1 is phosphorylated within the ITSM motif, leading to the recruitment of the protein tyrosine phosphatase…
Monomer
Cell membrane
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 6UMU | X-ray | 1.18 Å | A=33-150 |
| 6J14 | X-ray | 1.4 Å | G=33-147 |
| 6UMV | X-ray | 1.42 Å | A=33-150 |
| 7WSL | X-ray | 1.53 Å | D=29-150 |
| 9EHT | X-ray | 1.54 Å | F/J=26-150 |
| 7VUX | X-ray | 1.64 Å | A=32-160 |
| 8EQ6 | X-ray | 1.65 Å | A=25-148 |
| 6K0Y | X-ray | 1.7 Å | C=25-167 |
| 7E9B | X-ray | 1.78 Å | C=32-146 |
| 9Q8L | X-ray | 1.85 Å | A=24-170 |
| 8GY5 | X-ray | 1.98 Å | P/Q=26-150 |
| 6UMT | X-ray | 1.99 Å | A=33-150 |
| 5GGS | X-ray | 2.0 Å | Y/Z=26-148 |
| 9HK1 | X-ray | 2.03 Å | A/B=25-148 |
| 3RRQ | X-ray | 2.1 Å | A=32-160 |
| 6ROY | X-ray | 2.1 Å | C/D=219-229 |
| 5B8C | X-ray | 2.15 Å | C/F/I/L=32-160 |
| 6HIG | X-ray | 2.2 Å | B=33-150 |
| 5WT9 | X-ray | 2.4 Å | G=1-167 |
| 4ZQK | X-ray | 2.45 Å | B=33-150 |
Showing 20 of 37 experimental structures (best resolution first).
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