Spliceosome RNA helicase DDX39B (DDX39B) is a 428-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q13838.
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The mean pLDDT of this model is 84.8 (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 | 64% |
| 70 to 90 | Confident: backbone generally right | 20% |
| 50 to 70 | Low: treat with caution | 7% |
| Below 50 | Very low: often disordered regions | 10% |
What pLDDT means and how to read it
Involved in nuclear export of spliced and unspliced mRNA (PubMed:15833825, PubMed:15998806, PubMed:17190602). Component of the TREX complex which is thought to couple mRNA transcription, processing and nuclear export, and specifically associates with spliced mRNA and not with unspliced pre-mRNA (PubMed:15833825, PubMed:15998806, PubMed:17190602). The TREX complex is recruited to spliced mRNAs by a transcription-independent mechanism, binds to mRNA upstream of the exon-junction complex (EJC) and is recruited in a splicing- and cap-dependent manner to a region near the 5' end of the mRNA where it functions in mRNA export to the cytoplasm via the TAP/NXF1 pathway (PubMed:15833825,…
Homodimer, and heterodimer with DDX39A (PubMed:11675789, PubMed:14667819, PubMed:15833825). DDX39B interacts with the THO subcomplex to form the THO-DDX39B complex which multimerizes into a 28-subunit tetrameric assembly (PubMed:33191911, PubMed:37020021). Component of the transcription/export (TREX) complex at least composed of ALYREF/THOC4, DDX39B, SARNP/CIP29, CHTOP and the THO subcomplex; in…
Nucleus, Nucleus speckle, Cytoplasm
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 1T5I | X-ray | 1.9 Å | A=258-428 |
| 1T6N | X-ray | 1.94 Å | A/B=34-251 |
| 1XTI | X-ray | 1.95 Å | A=46-428 |
| 1XTK | X-ray | 2.4 Å | A=45-428 |
| 8ENK | X-ray | 2.5 Å | A/B=44-428 |
| 1XTJ | X-ray | 2.7 Å | A=44-423 |
| 9DLP | EM | 2.79 Å | D=1-428 |
| 9DLV | EM | 2.97 Å | D=1-428 |
| 9DLR | EM | 3.08 Å | D=1-428 |
| 7APK | EM | 3.3 Å | H/P/h/p=1-428 |
| 9UPB | EM | 3.41 Å | D=1-428 |
| 7ZNL | EM | 3.45 Å | H/P/h/p=1-428 |
| 8R7K | EM | 3.5 Å | H=1-428 |
| 7ZNK | EM | 3.9 Å | H/P/h/p=1-428 |
| 8R7L | EM | 4.12 Å | H=1-428 |
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