Mediator of RNA polymerase II transcription subunit 25 (MED25) is a 747-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q71SY5.
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The mean pLDDT of this model is 62.5 (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 | 25% |
| 70 to 90 | Confident: backbone generally right | 19% |
| 50 to 70 | Low: treat with caution | 8% |
| Below 50 | Very low: often disordered regions | 48% |
What pLDDT means and how to read it
Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. Required for RARA/RXRA-mediated transcription
Component of the Mediator complex, which is composed of MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The MED12, MED13, CCNC and CDK8 subunits form a distinct module termed the CDK8 module. Mediator containing the CDK8…
Nucleus
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 9CCV | X-ray | 2.53 Å | B=389-543 |
| 7EMF | EM | 3.5 Å | Y=1-747 |
| 8GXS | EM | 4.16 Å | y=1-747 |
| 8T9D | EM | 4.66 Å | T=1-747 |
| 7LBM | EM | 4.8 Å | 3=1-747 |
| 8GXQ | EM | 5.04 Å | y=1-747 |
| 2KY6 | NMR | A=391-553 | |
| 2L23 | NMR | A=391-548 | |
| 2L6U | NMR | A=391-543 | |
| 2XNF | NMR | A=394-543 |
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