Protein SAWADEE HOMEODOMAIN HOMOLOG 1 (SHH1) is a 258-residue protein from Arabidopsis thaliana. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q9XI47.
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The mean pLDDT of this model is 79.3 (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 | 53% |
| 70 to 90 | Confident: backbone generally right | 21% |
| 50 to 70 | Low: treat with caution | 5% |
| Below 50 | Very low: often disordered regions | 21% |
What pLDDT means and how to read it
Involved in RNA-directed DNA methylation (RdDM). Required for the silencing of some endogenous RdDM targets and accumulation of 24-nt siRNAs, but not for the production of Pol V-dependent transcripts. Functions in transcriptional silencing through both DNA methylation-dependent and -independent pathways. Required for both maintenance and de-novo DNA methylation. Plays a role in the recruitment of Pol IV to genomic regions associated with K9 methylated histone H3 that are targets for RdDM
Associates with the RNA polymerase IV (Pol IV) complex. Interacts with NRPD1, NRPD2, NRPD3, NRPD3B, CLSY1 and CLSY2
Nucleus
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 4IUP | X-ray | 1.9 Å | A/B=125-258 |
| 4IUR | X-ray | 2.5 Å | A/B=125-258 |
| 4IUT | X-ray | 2.7 Å | A/B=125-258 |
| 4IUU | X-ray | 2.7 Å | A/B=125-258 |
| 4IUV | X-ray | 2.8 Å | A/B=125-258 |
| 4IUQ | X-ray | 2.81 Å | A/B=125-258 |
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