DNA damage response protein Mdb1 (mdb1) is a 624-residue protein from Schizosaccharomyces pombe (strain 972 / ATCC 24843). This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: O14079.
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The mean pLDDT of this model is 67.1 (low 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 | 31% |
| 70 to 90 | Confident: backbone generally right | 11% |
| 50 to 70 | Low: treat with caution | 23% |
| Below 50 | Very low: often disordered regions | 35% |
What pLDDT means and how to read it
Involved in DNA damage response (DDR) mediated through its interaction with phosphorylated H2A proteins hta1 and hta2 which mark the discrete foci of DNA damage
Homodimer (PubMed:26160178). Interacts (via BRCT domain) with hta1 peptide containing the S/T-Q motif in vitro; this interaction requires phosphorylation of the hta1 peptide at the S/T-Q motif (PubMed:24806815, PubMed:26160178)
Nucleus, Chromosome, Cytoplasm, cytoskeleton, spindle
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 7P0J | X-ray | 1.48 Å | A=384-581 |
| 6HM4 | X-ray | 1.77 Å | B=106-120 |
| 7P0L | X-ray | 1.97 Å | A/B=384-581 |
| 4S3H | X-ray | 2.7 Å | A/B/C/D=1-104 |
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