General transcription and DNA repair factor IIH helicase subunit XPD (ERCC2) is a 760-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P18074.
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The mean pLDDT of this model is 87.6 (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 | 54% |
| 70 to 90 | Confident: backbone generally right | 41% |
| 50 to 70 | Low: treat with caution | 4% |
| Below 50 | Very low: often disordered regions | 1% |
What pLDDT means and how to read it
ATP-dependent 5'-3' DNA helicase (PubMed:31253769, PubMed:8413672, PubMed:9771713). Component of the general transcription and DNA repair factor IIH (TFIIH) core complex, not absolutely essential for minimal transcription in vitro (PubMed:10024882, PubMed:17466626, PubMed:9771713). Required for transcription-coupled nucleotide excision repair (NER) of damaged DNA; recognizes damaged bases (PubMed:17466626, PubMed:23352696, PubMed:9771713). Sequestered in chromatin on UV-damaged DNA (PubMed:23352696). When complexed to CDK-activating kinase (CAK), involved in transcription by RNA polymerase II. In NER, TFIIH acts by opening DNA around the lesion to allow the excision of the damaged…
Component of the 7-subunit TFIIH core complex composed of XPB/ERCC3, XPD/ERCC2, GTF2H1, GTF2H2, GTF2H3, GTF2H4 and GTF2H5, which is active in NER (PubMed:9771713, PubMed:9852112). The core complex associates with the 3-subunit CDK-activating kinase (CAK) module composed of CCNH/cyclin H, CDK7 and MNAT1 to form the 10-subunit holoenzyme (holo-TFIIH) active in transcription (PubMed:9771713,…
Nucleus, Cytoplasm, cytoskeleton, spindle
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 6TUN | X-ray | 2.07 Å | A/B=245-439 |
| 28JM | EM | 3.29 Å | B=1-760 |
| 7EGB | EM | 3.3 Å | 7=1-760 |
| 8EBU | EM | 3.3 Å | B=1-760 |
| 9PD3 | EM | 3.3 Å | B=1-760 |
| 28JS | EM | 3.32 Å | B=1-760 |
| 9PD4 | EM | 3.4 Å | B=1-760 |
| 6RO4 | EM | 3.5 Å | B=1-760 |
| 7AD8 | EM | 3.5 Å | B=1-760 |
| 9XYU | EM | 3.5 Å | B=1-760 |
| 28KE | EM | 3.6 Å | B=1-760 |
| 8EBX | EM | 3.6 Å | B=1-760 |
| 8EBY | EM | 3.6 Å | B=1-760 |
| 6NMI | EM | 3.7 Å | B=1-760 |
| 7EGC | EM | 3.9 Å | 7=1-760 |
| 7NVX | EM | 3.9 Å | 0=1-760 |
| 8EBT | EM | 3.9 Å | B=1-730 |
| 28JV | EM | 3.91 Å | B=1-760 |
| 8BVW | EM | 4.0 Å | 1=1-760 |
| 8EBS | EM | 4.0 Å | B=1-760 |
Showing 20 of 51 experimental structures (best resolution first).
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