Large ribosomal subunit protein uL5 (rplE) is a 180-residue protein from Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / CCUG 27074 / LMG 4051 / NBRC 15346 / NCIMB 9279 / VKM B-1422 / R1). This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q9RXJ0.
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The mean pLDDT of this model is 91.1 (very high 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 | 77% |
| 70 to 90 | Confident: backbone generally right | 21% |
| 50 to 70 | Low: treat with caution | 2% |
| Below 50 | Very low: often disordered regions | 1% |
What pLDDT means and how to read it
This is one of the proteins that bind and probably mediate the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits; this bridge is implicated in subunit movement (By similarity). Contacts the P site tRNA; the 5S rRNA and some of its associated proteins might help stabilize positioning of ribosome-bound tRNAs
Forms a bridge to the 30S subunit in the 70S ribosome (By similarity). Part of the 50S ribosomal subunit; part of the 5S rRNA/L5/L18/L25 (CTC) subcomplex. Is known to contact the 5S rRNA, 23S rRNA and the P site tRNA
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 5DM6 | X-ray | 2.9 Å | D=3-179 |
| 2ZJR | X-ray | 2.91 Å | D=1-180 |
| 5DM7 | X-ray | 3.0 Å | D=3-179 |
| 1NKW | X-ray | 3.1 Å | D=1-180 |
| 4IO9 | X-ray | 3.2 Å | D=1-180 |
| 4IOA | X-ray | 3.2 Å | D=1-180 |
| 7A0S | X-ray | 3.22 Å | D=3-179 |
| 3PIO | X-ray | 3.25 Å | D=1-180 |
| 1NWY | X-ray | 3.3 Å | D=1-180 |
| 2ZJQ | X-ray | 3.3 Å | D=1-180 |
| 3CF5 | X-ray | 3.3 Å | D=1-180 |
| 7A0R | X-ray | 3.3 Å | D=3-179 |
| 7A18 | X-ray | 3.4 Å | D=2-177 |
| 1SM1 | X-ray | 3.42 Å | D=1-180 |
| 5JVG | X-ray | 3.43 Å | D=1-180 |
| 3PIP | X-ray | 3.45 Å | D=1-180 |
| 1NWX | X-ray | 3.5 Å | D=1-180 |
| 1XBP | X-ray | 3.5 Å | D=1-180 |
| 3DLL | X-ray | 3.5 Å | D=1-180 |
| 4WFN | X-ray | 3.54 Å | D=1-180 |
Showing 20 of 27 experimental structures (best resolution first).
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