Table 1.
Proteins of the PSD that displayed significant changes in abundance in PSDs isolated from GluN2B−/− cortical neurons compared with control neurons
| Protein name | Gene symbol | Accession no. | Coverage of the protein (%) | No. of peptides (CI ≥ 95%) | [Control: reference] ± SEM | [GluN2B−/−: reference] ± SEM |
|---|---|---|---|---|---|---|
| Core proteins | ||||||
| GluN1 | Grin1 | IPI:IPI00751834.1 | 18.67 | 2 | 0.847 ± 0.187 | 0.322 ± 0.117 |
| Glutamine synthetase | Glul | IPI:IPI00626790.3 | 45.58 | 8 | 0.750 ± 0.186 | 1.422 ± 0.192 |
| Actin cytoskeleton | ||||||
| Actin-related protein 3 | Actr3 | IPI:IPI00115627.4 | 37.59 | 9 | 0.879 ± 0.089 | 0.464 ± 0.021 |
| Actin filament-associated protein 1 | Afap1 | IPI:IPI00467327.4 | 22.33 | 2 | 1.057 ± 0.064 | 0.697 ± 0.049 |
| Profilin-2 | Pfn2 | IPI:IPI00845675.1 | 35.12 | 4 | 1.092 ± 0.064 | 1.399 ± 0.044 |
| GTPases | ||||||
| RAB5C member RAS oncogene family | Rab5c | IPI:IPI00404579.1 | 49.5 | 3 | 1.156 ± 0.063 | 1.542 ± 0.143 |
| Ras-related protein Rab-10 | Rab10 | IPI:IPI00130118.1 | 78.13 | 6 | 0.960 ± 0.110 | 1.752 ± 0.220 |
| Guanine nucleotide-binding protein subunit beta-5 | Gnb5 | IPI:IPI00127930.1 | 54.93 | 7 | 0.825 ± 0.049 | 0.408 ± 0.045 |
| Cell adhesion molecules | ||||||
| Cell cycle exit and neuronal differentiation protein 1 | Cend1 | IPI:IPI00122826.1 | 42.15 | 2 | 1.102 ± 0.092 | 0.196 ± 0.079 |
| Neurexin-2 | Nrxn2 | IPI:IPI00918148.1 | 36.58 | 7 | 0.919 ± 0.054 | 0.461 ± 0.049 |
| Ephrin type-A receptor 4 precursor | Epha4 | IPI:IPI00337992.1 | 21.37 | 12 | 0.815 ± 0.073 | 0.569 ± 0.052 |
| Neurofascin isoform 2 precursor | Nfasc | IPI:IPI00930898.1 | 29.03 | 4 | 1.028 ± 0.037 | 1.156 ± 0.030 |
| Kinases | ||||||
| Tyrosine-protein kinase Fyn | Fyn | IPI:IPI00762435.2 | 48.92 | 11 | 0.956 ± 0.051 | 0.703 ± 0.042 |
| cAMP-dependent protein kinase catalytic subunit alpha | Prkaca | IPI:IPI00230005.3 | 42.31 | 5 | 0.756 ± 0.102 | 1.290 ± 0.144 |
| UPS | ||||||
| E3 ubiquitin-protein ligase UBR4 | Ubr4 | IPI:IPI00845523.1 | 72.29 | 10 | 0.669 ± 0.105 | 0.317 ± 0.069 |
| Proteasome subunit beta type-1 | Psmb1 | IPI:IPI00113845.1 | 23.56 | 5 | 0.801 ± 0.074 | 0.459 ± 0.089 |
| Proteasome subunit beta type-2 | Psmb2 | IPI:IPI00128945.1 | 27.8 | 8 | 0.730 ± 0.092 | 0.434 ± 0.039 |
| Ubiquitin-like modifier-activating enzyme 1 | Uba1 | IPI:IPI00123313.1 | 36.45 | 11 | 1.360 ± 0.116 | 1.788 ± 0.057 |
| Ubiquitin specific protease 31 | Usp31 | IPI:IPI00762403.1 | 30.03 | 2 | 1.281 ± 0.393 | 8.085 ± 1.303 |
| Translation and protein folding | ||||||
| T-complex protein 1 subunit delta | Cct4 | IPI:IPI00116277.3 | 41.96 | 16 | 0.879 ± 0.054 | 0.647 ± 0.021 |
| T-complex protein 1 subunit zeta | Cct6a | IPI:IPI00116281.3 | 21.54 | 17 | 0.871 ± 0.040 | 0.747 ± 0.002 |
| Heat shock protein 105 kDa. Isoform HSP105-alpha | Hsph1 | IPI:IPI00123802.5 | 44 | 3 | 0.684 ± 0.133 | 1.389 ± 0.151 |
| 60S ribosomal protein L8 | Rpl8 | IPI:IPI00137787.3 | 46.59 | 8 | 0.976 ± 0.044 | 0.644 ± 0.078 |
| Metabolism | ||||||
| Atp8a1 protein | Atp8a1 | IPI:IPI00466422.2 | 67.16 | 4 | 1.168 ± 0.086 | 0.739 ± 0.083 |
| Prdx5 protein | Prdx5 | IPI:IPI00475031.1 | 44.81 | 2 | 0.969 ± 0.042 | 1.259 ± 0.018 |
| Peroxiredoxin-1 | Prdx1 | IPI:IPI00121788.1 | 36.03 | 9 | 0.902 ± 0.107 | 1.272 ± 0.047 |
| V-type proton ATPase 16 kDa proteolipid subunit | Atp6v0c | IPI:IPI00138378.4 | 41.64 | 6 | 0.773 ± 0.084 | 1.070 ± 0.089 |
| Fructose-bisphosphate aldolase A | Aldoa | IPI:IPI00856379.1 | 53 | 38 | 0.721 ± 0.123 | 0.232 ± 0.089 |
| Fatty acid-binding protein | Fabp7 | IPI:IPI00227585.6 | 58.33 | 3 | 1.040 ± 0.073 | 1.637 ± 0.248 |
| Other | ||||||
| Calmodulin | Calm1-3 | IPI:IPI00761696.2 | 51.58 | 15 | 0.991 ± 0.099 | 0.469 ± 0.106 |
| Phosphofurin acidic cluster sorting protein 1 | Pacs1 | IPI:IPI00321922.2 | 27.97 | 7 | 1.108 ± 0.075 | 1.538 ± 0.047 |
| Rps6-ps1 Uncharacterized protein | Rps6-ps1 | IPI:IPI00108454.2 | 21.93 | 5 | 1.098 ± 0.030 | 0.876 ± 0.064 |
CI, Confidence interval.