Nidogen-1 (Nid1) is a 1245-residue protein from Mus musculus. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P10493.
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The mean pLDDT of this model is 78.2 (confident 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 | 35% |
| 70 to 90 | Confident: backbone generally right | 43% |
| 50 to 70 | Low: treat with caution | 9% |
| Below 50 | Very low: often disordered regions | 14% |
What pLDDT means and how to read it
Sulfated glycoprotein widely distributed in basement membranes and tightly associated with laminin. Also binds to collagen IV and perlecan. It probably has a role in cell-extracellular matrix interactions
Interacts with FBLN1 (PubMed:11589703, PubMed:9299350). Interacts with LGALS3BP (PubMed:9501082). Interacts with PLXDC1 (PubMed:16574105). Interacts with SVEP1 (PubMed:36792666)
Secreted, extracellular space, extracellular matrix, basement membrane
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 1GL4 | X-ray | 2.0 Å | A=384-665 |
| 1H4U | X-ray | 2.2 Å | A=395-659 |
| 1NPE | X-ray | 2.3 Å | A=941-1207 |
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