DNA ligase 3 (LIG3) is a 1009-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P49916.
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The mean pLDDT of this model is 75.4 (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 | 48% |
| 70 to 90 | Confident: backbone generally right | 25% |
| 50 to 70 | Low: treat with caution | 4% |
| Below 50 | Very low: often disordered regions | 24% |
What pLDDT means and how to read it
Isoform 3 functions as a heterodimer with DNA-repair protein XRCC1 in the nucleus and can correct defective DNA strand-break repair and sister chromatid exchange following treatment with ionizing radiation and alkylating agents. Isoform 1 is targeted to mitochondria, where it functions as a DNA ligase in mitochondrial base-excision DNA repair (PubMed:10207110, PubMed:24674627)
Isoform 3 interacts (via BRCT domain) with the nuclear DNA-repair protein XRCC1. Interacts with POLG (PubMed:33855352). Interacts with POLB (PubMed:19336415)
Mitochondrion, Nucleus
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 3PC7 | X-ray | 1.65 Å | A/B=924-1009 |
| 3QVG | X-ray | 2.26 Å | A/C=924-1008 |
| 3PC8 | X-ray | 2.31 Å | C/D=924-1008 |
| 6WH1 | X-ray | 2.4 Å | B=932-1009 |
| 10YE | EM | 2.5 Å | L=474-681 |
| 10YH | EM | 2.9 Å | L=474-681 |
| 10YI | EM | 2.9 Å | L=474-681 |
| 10YF | EM | 3.0 Å | L=474-681 |
| 3L2P | X-ray | 3.0 Å | A=257-833 |
| 10YG | EM | 3.4 Å | L=474-681 |
| 1IMO | NMR | A=924-1009 | |
| 1IN1 | NMR | A=924-1009 | |
| 1UW0 | NMR | A=88-204 |
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