Neuroligin-2 (NLGN2) is a 835-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q8NFZ4.
Explore in 3D Color by confidence AlphaFold DB UniProt
The mean pLDDT of this model is 77.8 (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 | 58% |
| 70 to 90 | Confident: backbone generally right | 10% |
| 50 to 70 | Low: treat with caution | 5% |
| Below 50 | Very low: often disordered regions | 27% |
What pLDDT means and how to read it
Transmembrane scaffolding protein involved in cell-cell interactions via its interactions with neurexin family members. Mediates cell-cell interactions both in neurons and in other types of cells, such as Langerhans beta cells. Plays a role in synapse function and synaptic signal transmission, especially via gamma-aminobutyric acid receptors (GABA(A) receptors). Functions by recruiting and clustering synaptic proteins. Promotes clustering of postsynaptic GABRG2 and GPHN. Promotes clustering of postsynaptic LHFPL4 (By similarity). Modulates signaling by inhibitory synapses, and thereby plays a role in controlling the ratio of signaling by excitatory and inhibitory synapses and information…
Interacts with neurexins NRXN1, NRXN2 and NRXN3 (By similarity). Interaction with neurexins is mediated by heparan sulfate glycan modification on neurexin (By similarity). Interacts (via its C-terminus) with DLG4/PSD-95 (via PDZ domain 3) (PubMed:9278515). Interacts with PATJ (By similarity). Interacts with GPHN (By similarity). Interacts with MDGA1 and MDGA2 (By similarity). Found in a complex…
Cell membrane, Postsynaptic cell membrane, Presynaptic cell membrane, Cell projection, dendritic spine, Cell projection, dendrite, Synapse
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 9FAJ | EM | 2.6 Å | H=668-700 |
| 9FAK | EM | 2.6 Å | H=668-700 |
| 9FAP | EM | 2.8 Å | H=668-700 |
| 9FAN | EM | 2.9 Å | H=668-700 |
| 9FAQ | EM | 2.9 Å | H=668-700 |
| 9FAR | EM | 2.9 Å | H=668-700 |
| 9FAW | EM | 2.9 Å | H=668-700 |
| 9FAX | EM | 2.9 Å | G/H=668-700 |
| 9FAU | EM | 3.1 Å | H=668-700 |
| 5XEQ | X-ray | 3.14 Å | A=42-611 |
| 9FAV | EM | 3.2 Å | H=668-700 |
| 8GS4 | EM | 3.5 Å | A/B=1-835 |
| 9FAM | EM | 3.5 Å | H=668-700 |
| 9FAT | EM | 3.6 Å | H=668-700 |
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.