Nonsense-mediated mRNA decay factor SMG9 (SMG9) is a 520-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q9H0W8.
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The mean pLDDT of this model is 70.6 (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 | 37% |
| 70 to 90 | Confident: backbone generally right | 20% |
| 50 to 70 | Low: treat with caution | 6% |
| Below 50 | Very low: often disordered regions | 37% |
What pLDDT means and how to read it
Involved in nonsense-mediated decay (NMD) of mRNAs containing premature stop codons (PubMed:19417104). Is recruited by release factors to stalled ribosomes together with SMG1 and SMG8 (forming the SMG1C protein kinase complex) and, in the SMG1C complex, is required for the efficient association between SMG1 and SMG8 (PubMed:19417104). Plays a role in brain, heart, and eye development (By similarity)
Self-associates to form homodimers and forms heterodimers with SMG8; these assembly forms may represent SMG1C intermediate forms (PubMed:20817927). Component of the SMG1C complex composed of SMG1, SMG8 and SMG9 (PubMed:33205750). Interacts with DHX34; the interaction is RNA-independent (PubMed:25220460)
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 7PW8 | EM | 2.82 Å | C=1-520 |
| 6Z3R | EM | 2.97 Å | C=1-520 |
| 8FE7 | X-ray | 2.98 Å | B/D/F/H=140-151 |
| 7PW9 | EM | 3.12 Å | C=169-520 |
| 7PW4 | EM | 3.27 Å | C=1-520 |
| 7PW5 | EM | 3.4 Å | C=1-520 |
| 6L54 | EM | 3.43 Å | C=1-520 |
| 6SYT | EM | 3.45 Å | C=1-520 |
| 7PW7 | EM | 3.59 Å | C=1-520 |
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