DNA-directed RNA polymerases I, II, and III subunit RPABC2 (POLR2F) is a 127-residue protein from Sus scrofa. This is its AlphaFold structure prediction, created 1 Jun 2022. UniProt accession: A0A4X1VEK9.
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The mean pLDDT of this model is 78.3 (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 | 54% |
| 70 to 90 | Confident: backbone generally right | 10% |
| 50 to 70 | Low: treat with caution | 21% |
| Below 50 | Very low: often disordered regions | 14% |
What pLDDT means and how to read it
DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Common component of RNA polymerases I, II, and III which synthesize ribosomal RNA precursors, mRNA precursors and many functional non-coding RNAs, and small RNAs, such as 5S rRNA and tRNAs, respectively. Pol II is the central component of the basal RNA polymerase II transcription machinery. Pols are composed of mobile elements that move relative to each other. In Pol II, POLR2F/RPABC2 is part of the clamp element and together with parts of POLR2A/RPB1 and POLR2B/RPB2 forms a pocket to which the POLR2D/RPB4-POLR2G/RPB7 subcomplex binds
Nucleus
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 9BZ0 | EM | 1.9 Å | F=1-127 |
| 9HVQ | EM | 2.0 Å | F=1-127 |
| 9MLC | EM | 2.4 Å | F=1-127 |
| 7NVU | EM | 2.5 Å | F=1-127 |
| 8QEP | EM | 2.5 Å | F=1-127 |
| 8B3D | EM | 2.6 Å | F=1-127 |
| 7OOB | EM | 2.7 Å | F=1-127 |
| 8UHG | EM | 2.7 Å | F=1-127 |
| 8UI0 | EM | 2.7 Å | F=1-127 |
| 8WAV | EM | 2.72 Å | t=1-127 |
| 8WAX | EM | 2.75 Å | t=1-127 |
| 8WAZ | EM | 2.76 Å | t=1-127 |
| 7F4G | EM | 2.78 Å | F=1-127 |
| 8WAU | EM | 2.78 Å | t=1-127 |
| 7B7U | EM | 2.8 Å | F=1-127 |
| 7NVS | EM | 2.8 Å | F=1-127 |
| 7OO3 | EM | 2.8 Å | F=1-127 |
| 8OEW | EM | 2.8 Å | F=1-127 |
| 8UHD | EM | 2.8 Å | F=1-127 |
| 9HVO | EM | 2.8 Å | F=1-127 |
Showing 20 of 110 experimental structures (best resolution first).
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