NHP2-like protein 1 (SNU13) is a 128-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P55769.
Explore in 3D Color by confidence AlphaFold DB UniProt
The mean pLDDT of this model is 94.9 (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 | 91% |
| 70 to 90 | Confident: backbone generally right | 6% |
| 50 to 70 | Low: treat with caution | 2% |
| Below 50 | Very low: often disordered regions | 2% |
What pLDDT means and how to read it
Part of the small subunit (SSU) processome, first precursor of the small eukaryotic ribosomal subunit. During the assembly of the SSU processome in the nucleolus, many ribosome biogenesis factors, an RNA chaperone and ribosomal proteins associate with the nascent pre-rRNA and work in concert to generate RNA folding, modifications, rearrangements and cleavage as well as targeted degradation of pre-ribosomal RNA by the RNA exosome (PubMed:34516797). Involved in pre-mRNA splicing as component of the spliceosome (PubMed:28781166). Binds to the 5'-stem-loop of U4 snRNA and thereby contributes to spliceosome assembly (PubMed:10545122, PubMed:17412961). The protein undergoes a conformational…
Identified in the spliceosome B complex (PubMed:28781166). Component of the U4/U6-U5 tri-snRNP complex composed of the U4, U6 and U5 snRNAs and at least PRPF3, PRPF4, PRPF6, PRPF8, PRPF31, SNRNP200, TXNL4A, WDR57, SNRNP40, DDX23, CD2BP2, PPIH, NHP2L1, EFTUD2, SART1 and USP39 (PubMed:16723661, PubMed:26912367). Interacts with RAD17 and PRPF31 (PubMed:10593953, PubMed:17412961, PubMed:21784869).…
Nucleus, Nucleus, nucleolus
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 2OZB | X-ray | 2.6 Å | A/D=1-128 |
| 8H6L | EM | 2.6 Å | 4E=1-128 |
| 3SIU | X-ray | 2.63 Å | A/D=1-128 |
| 7MQA | EM | 2.7 Å | SE/SF=1-128 |
| 8H6K | EM | 2.7 Å | 4E=1-128 |
| 1E7K | X-ray | 2.9 Å | A/B=1-128 |
| 6QW6 | EM | 2.92 Å | 4D=1-128 |
| 8Q7N | EM | 3.1 Å | M=1-128 |
| 8QOZ | EM | 3.1 Å | M=1-128 |
| 8QPE | EM | 3.1 Å | M=1-128 |
| 8H6E | EM | 3.2 Å | 4E=1-128 |
| 8H6J | EM | 3.25 Å | 4E=1-128 |
| 6QX9 | EM | 3.28 Å | 4D=1-128 |
| 3SIV | X-ray | 3.3 Å | A/D/G/J=1-128 |
| 8Y6O | EM | 3.38 Å | O=1-128 |
| 7MQ8 | EM | 3.6 Å | SE/SF=1-128 |
| 8QPA | EM | 3.7 Å | M=1-128 |
| 8QPB | EM | 3.7 Å | M=1-128 |
| 6AHD | EM | 3.8 Å | M=1-128 |
| 7MQ9 | EM | 3.87 Å | SE/SF=1-128 |
Showing 20 of 32 experimental structures (best resolution first).
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.