DNA repair protein complementing XP-A cells (XPA) is a 273-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P23025.
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The mean pLDDT of this model is 81.4 (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 | 51% |
| 70 to 90 | Confident: backbone generally right | 21% |
| 50 to 70 | Low: treat with caution | 18% |
| Below 50 | Very low: often disordered regions | 10% |
What pLDDT means and how to read it
Involved in DNA nucleotide excision repair (NER). Initiates repair by binding to damaged sites with various affinities, depending on the photoproduct and the transcriptional state of the region. Required for UV-induced CHEK1 phosphorylation and the recruitment of CEP164 to cyclobutane pyrimidine dimmers (CPD), sites of DNA damage after UV irradiation (PubMed:19197159). During NER stimulates the 5'-3' helicase activity of XPD/ERCC2 and the DNA translocase activity of XPB/ERCC3 (PubMed:31253769). Connects XPD/ERCC2 and XPB/ERCC3 during NER, retaining DNA near the XPB/ERCC3 active site, and stabilizing the complex in a different conformation than in transcribing TFIIH (PubMed:31253769)
Interacts with GPN1. Interacts with RPA1 and RPA2; the interaction is direct and associates XPA with the RPA complex. Interacts (via N-terminus) with CEP164 upon UV irradiation. Interacts with HERC2. During NER binds XPD/ERCC2 and XPB/ERCC3 of transcription factor IIH (TFIIH), bridging the 2 proteins (PubMed:31253769)
Nucleus
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 6J44 | X-ray | 2.06 Å | A=98-239 |
| 6LAE | X-ray | 2.81 Å | A/B=98-239 |
| 9QEC | EM | 2.9 Å | C=1-273 |
| 8EBU | EM | 3.3 Å | K=1-273 |
| 9PD3 | EM | 3.3 Å | K=1-273 |
| 9PD4 | EM | 3.4 Å | K=1-273 |
| 6RO4 | EM | 3.5 Å | G=1-273 |
| 7AD8 | EM | 3.5 Å | G=1-273 |
| 9XYU | EM | 3.5 Å | K=1-273 |
| 28KE | EM | 3.6 Å | N=1-273 |
| 8EBX | EM | 3.6 Å | K=1-273 |
| 8EBY | EM | 3.6 Å | K=1-273 |
| 8EBT | EM | 3.9 Å | K=102-273 |
| 9PCP | EM | 4.3 Å | K=1-273 |
| 9PD5 | EM | 5.7 Å | K=1-273 |
| 1D4U | NMR | A=98-208 | |
| 1XPA | NMR | A=98-219 | |
| 2JNW | NMR | B=67-80 |
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