Regulation of nuclear pre-mRNA domain-containing protein 1B (RPRD1B) is a 326-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q9NQG5.
Explore in 3D Color by confidence AlphaFold DB UniProt
The mean pLDDT of this model is 82.8 (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 | 15% |
| 50 to 70 | Low: treat with caution | 9% |
| Below 50 | Very low: often disordered regions | 13% |
What pLDDT means and how to read it
Interacts with phosphorylated C-terminal heptapeptide repeat domain (CTD) of the largest RNA polymerase II subunit POLR2A, and participates in dephosphorylation of the CTD by RPAP2. Transcriptional regulator which enhances expression of CCND1. Promotes binding of RNA polymerase II to the CCDN1 promoter and to the termination region before the poly-A site but decreases its binding after the poly-A site. Prevents RNA polymerase II from reading through the 3' end termination site and may allow it to be recruited back to the promoter through promotion of the formation of a chromatin loop. Also enhances the transcription of a number of other cell cycle-related genes including CDK2, CDK4, CDK6…
Homodimer (PubMed:24997600). May form a heterodimer with RPRD1A (PubMed:24997600). Associates with RPAP2 (PubMed:24997600). Associates with the RNA polymerase II complex (PubMed:22231121, PubMed:24399136, PubMed:24997600)
Nucleus
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 4Q94 | X-ray | 1.85 Å | A/B=2-135 |
| 4Q96 | X-ray | 1.85 Å | A/B/D/E=2-135 |
| 4FU3 | X-ray | 1.9 Å | A/B=2-135 |
| 4HFG | X-ray | 2.0 Å | A/B=2-135 |
| 4FLA | X-ray | 2.2 Å | A/B/C/D=172-305 |
| 9B9L | X-ray | 2.5 Å | A/B=3-133 |
| 4NAD | X-ray | 2.8 Å | A/B=177-326 |
MolViewer loads the AlphaFold model straight from AlphaFold DB into your browser. Show it as a cartoon, color by pLDDT, measure distances and angles, and load a PDB structure next to it to compare.