Lysine--tRNA ligase (KARS1) is a 597-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q15046.
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The mean pLDDT of this model is 90.5 (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 | 82% |
| 70 to 90 | Confident: backbone generally right | 8% |
| 50 to 70 | Low: treat with caution | 2% |
| Below 50 | Very low: often disordered regions | 8% |
What pLDDT means and how to read it
Catalyzes the specific attachment of an amino acid to its cognate tRNA in a 2 step reaction: the amino acid (AA) is first activated by ATP to form AA-AMP and then transferred to the acceptor end of the tRNA (PubMed:18029264, PubMed:18272479, PubMed:9278442). When secreted, acts as a signaling molecule that induces immune response through the activation of monocyte/macrophages (PubMed:15851690). Catalyzes the synthesis of the signaling molecule diadenosine tetraphosphate (Ap4A), and thereby mediates disruption of the complex between HINT1 and MITF and the concomitant activation of MITF transcriptional activity (PubMed:14975237, PubMed:19524539, PubMed:23159739, PubMed:5338216)
Homodimer and tetradimer (PubMed:18272479, PubMed:23159739, PubMed:26074468, PubMed:28887846). Part of the multisynthetase complex (MSC), a multisubunit complex that groups tRNA ligases for Arg (RARS), Asp (DARS), Gln (QARS), Ile (IARS), Leu (LARS), Lys (KARS), Met (MARS) the bifunctional ligase for Glu and Pro (EPRS) and the auxiliary subunits AIMP1/p43, AIMP2/p38 and EEF1E1/p18…
Cytoplasm, cytosol, Cytoplasm, Nucleus, Cell membrane, Secreted, Mitochondrion
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 6ILD | X-ray | 1.88 Å | A/B=70-581 |
| 4YCU | X-ray | 2.1 Å | A/B=70-581 |
| 8XP4 | X-ray | 2.26 Å | A/B=70-580 |
| 3BJU | X-ray | 2.31 Å | A/B/C/D=70-582 |
| 6CHD | X-ray | 2.5 Å | A/B=1-597 |
| 6ILH | X-ray | 2.5 Å | A/B=70-581 |
| 7EA9 | X-ray | 2.5 Å | A/B/C/D=70-581 |
| 8HYR | X-ray | 2.55 Å | A/B=70-580 |
| 9DPL | EM | 2.8 Å | A/B=1-597 |
| 4DPG | X-ray | 2.84 Å | A/B/C/D/E/F/G/H=70-581 |
| 4YCW | X-ray | 2.9 Å | A/B/E/F=70-581 |
| 9DPB | EM | 2.9 Å | A/B=1-597 |
| 9DPA | EM | 3.0 Å | A/B=1-597 |
| 9DOW | EM | 3.1 Å | A/B=1-597 |
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