RNA-binding protein 39 (RBM39) is a 530-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q14498.
Explore in 3D Color by confidence AlphaFold DB UniProt
The mean pLDDT of this model is 66.8 (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 | 14% |
| 70 to 90 | Confident: backbone generally right | 38% |
| 50 to 70 | Low: treat with caution | 13% |
| Below 50 | Very low: often disordered regions | 35% |
What pLDDT means and how to read it
RNA-binding protein that acts as a pre-mRNA splicing factor (PubMed:15694343, PubMed:24795046, PubMed:28302793, PubMed:28437394, PubMed:31271494). Acts by promoting exon inclusion via regulation of exon cassette splicing (PubMed:31271494). Also acts as a transcriptional coactivator for steroid nuclear receptors ESR1/ER-alpha and ESR2/ER-beta, and JUN/AP-1, independently of the pre-mRNA splicing factor activity (By similarity)
Interacts with NCOA6 and JUN. Interacts with ESR1 and ESR2, in the presence of estradiol (E2) (By similarity). Interacts with RSRC1 (via Arg/Ser-rich domain) (PubMed:15798186). Interacts with SF3B1 (PubMed:24795046). Interacts with ZNF106 (via N-terminus) (By similarity)
Nucleus speckle
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 4YUD | X-ray | 1.28 Å | A=144-234 |
| 4OZ1 | X-ray | 1.74 Å | A/B=417-530 |
| 4OZ0 | X-ray | 2.2 Å | A/B=417-530 |
| 6UD7 | X-ray | 2.3 Å | C=248-328 |
| 6UE5 | X-ray | 2.61 Å | C=248-328 |
| 4OO6 | X-ray | 2.7 Å | B=73-99 |
| 6PAI | X-ray | 2.9 Å | D=235-331 |
| 6Q0R | X-ray | 2.9 Å | D=250-332 |
| 6Q0V | X-ray | 2.9 Å | D=250-332 |
| 6Q0W | X-ray | 2.9 Å | D=250-332 |
| 6SJ7 | EM | 3.54 Å | C=248-328 |
| 2JRS | NMR | A=235-331 | |
| 2MHN | NMR | A=144-234 | |
| 7Q33 | NMR | A=247-332 |
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