Collagen alpha-1(II) chain (COL2A1) is a 1487-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P02458.
Explore in 3D Color by confidence AlphaFold DB UniProt
The mean pLDDT of this model is 52.1 (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 | 13% |
| 70 to 90 | Confident: backbone generally right | 6% |
| 50 to 70 | Low: treat with caution | 11% |
| Below 50 | Very low: often disordered regions | 69% |
What pLDDT means and how to read it
Type II collagen is specific for cartilaginous tissues. It is essential for the normal embryonic development of the skeleton, for linear growth and for the ability of cartilage to resist compressive forces
Homotrimers of alpha 1(II) chains
Secreted, extracellular space, extracellular matrix
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 6HG7 | X-ray | 1.0 Å | A/B/C=1116-1153 |
| 5NIR | X-ray | 1.74 Å | A/B=29-98 |
| 5OCX | X-ray | 1.75 Å | A=484-498 |
| 7NZE | X-ray | 2.05 Å | EEE/FFF=459-473 |
| 6NIX | X-ray | 2.1 Å | C=459-473 |
| 2SEB | X-ray | 2.5 Å | E=1238-1247 |
| 6BIN | X-ray | 2.5 Å | C=1237-1249 |
| 5OCY | X-ray | 2.6 Å | C=1120-1134 |
| 2FSE | X-ray | 3.1 Å | E/F=461-474 |
| 1U5M | NMR | A=29-97 |
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.