Glutamate receptor ionotropic, NMDA 2D (GRIN2D) is a 1336-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: O15399.
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The mean pLDDT of this model is 63.2 (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 | 15% |
| 70 to 90 | Confident: backbone generally right | 37% |
| 50 to 70 | Low: treat with caution | 9% |
| Below 50 | Very low: often disordered regions | 40% |
What pLDDT means and how to read it
Component of N-methyl-D-aspartate (NMDA) receptors (NMDARs) that function as heterotetrameric, ligand-gated cation channels with high calcium permeability and voltage-dependent block by Mg(2+) (PubMed:26875626, PubMed:27616483, PubMed:28126851, PubMed:9489750). Participates in synaptic plasticity for learning and memory formation (By similarity). Channel activation requires binding of the neurotransmitter L-glutamate to the GluN2 subunit, glycine or D-serine binding to the GluN1 subunit, plus membrane depolarization to eliminate channel inhibition by Mg(2+) (PubMed:26875626, PubMed:27616483, PubMed:28126851, PubMed:9489750). NMDARs mediate simultaneously the potassium efflux and the influx…
Heterotetramer. Forms heterotetrameric channels composed of two GluN1/zeta subunits (GRIN1), and two identical GluN2/epsilon subunits (GRIN2A, GRIN2B, GRIN2C or GRIN2D) or GluN3 subunits (GRIN3A or GRIN3B) (in vitro) (PubMed:26875626, PubMed:28126851, PubMed:36959261, PubMed:9489750). In vivo, the subunit composition may depend on the expression levels of the different subunits (Probable).…
Cell membrane, Postsynaptic cell membrane
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 9D37 | EM | 3.34 Å | D=28-880 |
| 8E96 | EM | 3.38 Å | B/D=28-879 |
| 7YFF | EM | 3.6 Å | B/D=1-879 |
| 9D39 | EM | 3.65 Å | D=28-880 |
| 9D3B | EM | 3.71 Å | D=28-880 |
| 9D3A | EM | 3.78 Å | D=28-880 |
| 7YFL | EM | 3.9 Å | B/D=1-879 |
| 9D38 | EM | 3.95 Å | D=28-880 |
| 9D3C | EM | 3.96 Å | D=28-880 |
| 8Y1V | EM | 4.2 Å | B/D=1-879 |
| 7YFM | EM | 5.1 Å | B/D=1-879 |
| 7YFR | EM | 5.1 Å | B/D=1-879 |
| 7YFO | EM | 6.4 Å | B/D=1-879 |
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