TABLE 1.
Proteins associated with HFY-NL2
Two-step purification of complexes using the His6 and YFP tags was performed as described in the legend to Fig. 5 from five sets of adult age-matched and sex-matched Thy1-HFY-NL2 (TG) and WT mice. After removal of human keratins, all components are listed that passed the identity criteria of at least 2 unique peptides in two experiments or 1 unique peptide in three experiments in TG samples, and the selection criteria of PSM ratio of ≥4:1 TG:WT in at least two experiments and PSM ratio ≤1:2 TG:WT in no more than one experiment and cumulative total PSM ratio >2:1 TG:WT. Listed here are the cumulative total PSM from TG and WT samples from the five experiments; italics indicates uncertainty in PSM allocation among closely related proteins due to some common peptides. Protein categories were defined by manual curation from PubMed and GeneCards.
| Accession | Gene symbol | Protein name | TG total PSM | WT total PSM |
|---|---|---|---|---|
| Synaptic adhesion | ||||
| IPI00468605.4 | Nlgn2 | Neuroligin 2 (transgene) | 192 | 2 |
| IPI00885337.1 | Nlgn3 | Neuroligin 3 | 30 | 1 |
| IPI00858277.1 | Nlgn4 | Neuroligin 4 | 44 | 0 |
| IPI00930898.1 | Nfasc | Neurofascin | 8 | 2 |
| Neurotransmitter receptor | ||||
| IPI00113772.1 | Gabra1 | GABAAR α1 | 16 | 2 |
| IPI00323554.3 | Gabrb2 | GABAAR β2 | 11 | 0 |
| IPI00874658.1 | Gabrg2 | GABAAR γ2 | 11 | 0 |
| Trafficking | ||||
| IPI00420426.1 | Ap3b2 | AP-3 complex subunit β-2 | 7 | 0 |
| IPI00221754.3 | Atl1 | atlastin 1 | 8 | 1 |
| IPI00670114.1 | Cadps | Calcium-dependent secretion activator 1 isoform 4 | 15 | 3 |
| IPI00650037.2 | Dnajc6 | DnaJ (Hsp40) homolog, subfamily C, member 6 isoform 2 | 6 | 0 |
| IPI00874710.1 | Dnm1l | Dynamin 1-like | 9 | 3 |
| IPI00625738.3 | Dnm3 | Dynamin 3 | 24 | 9 |
| IPI00122399.1 | Glg1 | Golgi apparatus protein 1 | 8 | 1 |
| IPI00323881.1 | Kpnb1 | Importin subunit beta-1 | 6 | 1 |
| IPI00776187.1 | Myo6 | Myosin VI | 5 | 0 |
| IPI00311515.2 | Napb | N-Ethylmaleimide-sensitive factor attachment protein β | 34 | 2 |
| IPI00889265.1 | Ncdn | Neurochondrin | 19 | 2 |
| IPI00337980.5 | Rab21 | Rab21 | 5 | 2 |
| IPI00622482.2 | Rufy3 | RUN and FYVE domain containing 3 isoform 1 | 8 | 1 |
| IPI00123349.2 | Sec23a | Sec23A | 4 | 0 |
| IPI00653617.1 | Snap91 | Synaptosomal-associated protein, 91kDa | 14 | 4 |
| IPI00885385.1 | Stx1a | Syntaxin 1a | 7 | 1 |
| IPI00874893.1 | Stx1b | Syntaxin 1b | 31 | 9 |
| IPI00125267.4 | Vapa | Vesicle-associated membrane protein-associated protein A | 4 | 0 |
| IPI00135655.3 | Vapb | Vesicle-associated membrane protein-associated protein B | 5 | 0 |
| IPI00111181.1 | Vps35 | Vacuolar protein sorting-associated protein 35 | 6 | 1 |
| IPI00395038.3 | XpoI | exportin-1 | 7 | 0 |
| Kinases | ||||
| IPI00119762.4 | Dclk1 | Double cortin and calcium/calmodulin-dependent protein kinase-like 1, isoform CRA_c | 7 | 0 |
| IPI00122069.1 | Prkcc | Protein kinase Cγ type | 23 | 8 |
| Ubiquitination and proteasome | ||||
| IPI00896727.1 | Cand1 | Cullin-associated NEDD8-dissociated protein 1 | 16 | 1 |
| IPI00758064.1 | Psmc3 | Proteasome 26 S subunit ATPase 3 | 4 | 0 |
| IPI00123313.1 | Uba1 | Ubiquitin-like modifier-activating enzyme 1 | 11 | 1 |
| Ion channel and associated | ||||
| IPI00845769.1 | Gpd1l | Glycerol-3-phosphate dehydrogenase 1-like protein isoform 2 | 19 | 3 |
| IPI00876341.1 | Vdac3 | Voltage-dependent anion-selective channel protein 3 | 39 | 15 |
| Extracellular matrix | ||||
| IPI00869394.1 | Bcan | Brevican | 4 | 0 |
| IPI00227126.1 | Tnr | Tenascin-R | 17 | 1 |
| Cytoskeletal and scaffolding | ||||
| IPI00921659.1 | Ank2 | Ankyrin-2 | 14 | 5 |
| IPI00111265.3 | Capza2 | F-actin-capping protein subunit alpha-2 | 9 | 0 |
| IPI00652858.1 | Emd | Emerin | 4 | 0 |
| IPI00229300.2 | Epb4.1l3 | Erythrocyte membrane protein band 4.1-like 3 | 20 | 4 |
| IPI00464296.5 | Epb4.1l3 | Erythrocyte membrane protein band 4.1-like 3 isoform 8 | 21 | 5 |
| IPI00816946.1 | Gphn | Gephyrin | 16 | 1 |
| IPI00882056.2 | Mapre2 | Microtubule-associated protein, RP/EB family, member 2 isoform 3 | 4 | 0 |
| IPI00656204.1 | Nckap1 | Nck-associated protein 1 isoform 2 | 5 | 0 |
| Protein translation | ||||
| IPI00831544.1 | Cyfip1 | Cytoplasmic FMR1-interacting protein 1 isoform 2 | 12 | 3 |
| IPI00405625.9 | Cyfip2 | Cytoplasmic FMR1-interacting protein 2 | 12 | 3 |
| IPI00318841.4 | Eef1g | Eukaryotic translation elongation factor 1 gamma | 8 | 0 |
| IPI00466069.3 | Eef2 | Eukaryotic translation elongation factor 2 | 5 | 1 |
| IPI00319956.1 | IMPACT | Imprinted and ancient gene protein homolog | 8 | 0 |
| IPI00880400.1 | Rps2 | Ribosomal protein S2 | 9 | 0 |
| IPI00880750.1 | Rps9 | Ribosomal protein S9 | 4 | 0 |
| IPI00130353.5 | Vars | Valyl-tRNA synthetase | 4 | 0 |
| Protein folding and glycosylation | ||||
| IPI00121575.1 | Alg2 | α1,3-Mannosyltransferase | 15 | 5 |
| IPI00317710.1 | Hspa4l | Heat shock 70-kDa protein 4L isoform 1 | 17 | 1 |
| IPI00319992.1 | Hspa5 | Heat shock 70-kDa protein 5 | 172 | 44 |
| IPI00224109.2 | Hsph1 | Heat shock protein 105-kDa isoform HSP 105-β | 9 | 0 |
| IPI00123342.4 | Hyou1 | Hypoxia up-regulated protein 1 | 18 | 3 |
| IPI00676130.1 | Tmx4 | Thioredoxin-related transmembrane protein 4 | 8 | 0 |
| Miscellaneous | ||||
| IPI00119114.2 | Acadl | Long-chain specific acyl-CoA dehydrogenase | 6 | 0 |
| IPI00119458.7 | Aldoc | Fructose-bisphosphate aldolase C | 63 | 11 |
| IPI00468999.4 | Cds2 | Phosphatidate cytidylyltransferase 2 | 7 | 0 |
| IPI00754739.1 | Chchd3 | Coiled-coil-helix-coiled-coil-helix domain-containing protein 3 | 5 | 1 |
| IPI00126085.1 | Cyp46a1 | Cholesterol 24-hydroxylase | 3 | 0 |
| IPI00762654.1 | Erlin1 | ER lipid raft protein 1 | 7 | 1 |
| IPI00113223.2 | Fasn | Fatty acid synthase | 18 | 8 |
| IPI00118569.1 | Gna13 | Guanine nucleotide-binding protein subunit α-13 | 9 | 3 |
| IPI00229525.1 | Gnal | Guanine nucleotide-binding protein G(olf) subunit α | 7 | 3 |
| IPI00115607.3 | Hadhb | Trifunctional enzyme subunit β | 25 | 10 |
| IPI00114642.4 | Hist1h2bf | Histone H2B type 1-F/J/L | 6 | 2 |
| IPI00407339.7 | Hist1h4 | Histone H4 | 9 | 3 |
| IPI00953761.1 | Mgll | Monoglyceride lipase | 10 | 2 |
| IPI00608097.1 | Npepps | Aminopeptidase puromycin sensitive | 13 | 0 |
| IPI00121758.1 | Tardbp | TAR DNA-binding protein 43 | 9 | 0 |
| IPI00929787.1 | Tecr | Trans-2,3-enoyl-CoA reductase isoform 2 | 5 | 0 |
| Transgene tag | ||||
| CON_GFP | Green fluorescent protein | 90 | 1 | |