Table 4.
Complete list of proteins detected by mass spectrometry of the synaptic Chmp2b-containing HMW complex
| Protein name | Accession number | Note | SC 2B/SC Control | Chmp2b IgG SC | Control IgG |
||
|---|---|---|---|---|---|---|---|
| SSC | SC | SSC | |||||
| Bag6 | BAG6_RAT | 2B only | 35 | 35 | |||
| Gja1 | CXA1_RAT | 2B only | 29 | 29 | |||
| Get4 | F1LXF5_RAT | 2B only | 23 | 23 | |||
| Camk2g | KCC2G_RAT | PSD | 2B only | 14 | 4 | ||
| Chmp4b | D4A9Z8_RAT | ESCRT-III | 2B only | 12 | 12 | ||
| Fasn | FAS_RAT | 2B only | 11 | 11 | |||
| Ptpn23 | F1M951_RAT | ESCRT-III | 2B only | 10 | 10 | ||
| Alix | PDC6I_RAT | ESCRT-III | 2B only | 10 | 10 | ||
| Ubl4a | UBL4A_RAT | 2B only | 10 | 10 | |||
| Wdr7 | WDR7_RAT | 2B only | 10 | 10 | |||
| Myo6 | D4A5I9_RAT | CSK | 2B only | 9 | 9 | ||
| Hk1 | HXK1_RAT | 2B only | 9 | 9 | |||
| Sptbn2 | SPTN2_RAT | CSK | 2B only | 9 | 7 | ||
| Chmp2a | B2RZB5_RAT | ESCRT-III | 2B only | 8 | 8 | ||
| Chmp3 | CHMP3_RAT | ESCRT-III | 2B only | 8 | 8 | ||
| Pfkp | K6PP_RAT | 2B only | 8 | 7 | |||
| Ogt | OGT1_RAT | 2B only | 8 | 8 | |||
| Pfkm | Q52KS1_RAT | 2B only | 8 | 7 | |||
| Srcin1 | SRCN1_RAT | 2B only | 8 | 8 | |||
| Myo1d | MYO1D_RAT | CSK | 2B only | 7 | 7 | ||
| Capzb | CAPZB_RAT | CSK | 2B only | 6 | 6 | ||
| Myh14 | F1LNF0_RAT | CSK | 2B only | 6 | 2 | ||
| Ank2 | F1M9N9_RAT | CSK | 2B only | 6 | 6 | ||
| Sfxn | G3V804_RAT | 2B only | 6 | 2 | |||
| Homer1 | HOME1_RAT | PSD | 2B only | 6 | 6 | ||
| Ppp1ca | PP1A_RAT | 2B only | 6 | 2 | |||
| Ppp1cc | PP1G_RAT | 2B only | 6 | 2 | |||
| Hspa12a | D3ZC55_RAT | 2B only | 5 | 5 | |||
| Dbn1 | DREB_RAT | PSD | 2B only | 5 | 5 | ||
| Gphn | GEPH_RAT | 2B only | 5 | 5 | |||
| Idh2 | IDHP_RAT | 2B only | 5 | 5 | |||
| Shank1 | SHAN1_RAT | PSD | 2B only | 5 | 5 | ||
| Tpi1 | TPIS_RAT | 2B only | 5 | 5 | |||
| Sptbn1 | G3V6S0_RAT | CSK | 35, 0 | 35 | 33 | (1) | (1) |
| Myh10 | F1LQ02_RAT | CSK | 24, 0 | 24 | 19 | (1) | (1) |
| Dync1h1 | DYHC1_RAT | 22, 0 | 22 | 5 | (1) | (1) | |
| Ap3d1 | B5DFK6_RAT | 12, 0 | 12 | 12 | (1) | (1) | |
| Myh9 | G3V6P7_RAT | CSK | 11, 0 | 11 | 6 | (1) | (1) |
| Cyfip2 | D3ZX82_RAT | CSK | 2B only | 4 | 4 | ||
| Chmp1a | D4AE79_RAT | ESCRT-III | 2B only | 4 | 4 | ||
| Glud1 | DHE3_RAT | 2B only | 4 | 4 | |||
| Sucla2 | F1LM47_RAT | 2B only | 4 | 4 | |||
| Epb41l3 | G3V874_RAT | CSK | 2B only | 4 | 4 | ||
| Kif2a | KIF2A_RAT | 2B only | 4 | 4 | |||
| Pclo | PCLO_RAT | 2B only | 4 | 4 | |||
| Snf8 | SNF8_RAT | 2B only | 4 | 4 | |||
| Snap25 | SNP25_RAT | 2B only | 4 | 4 | |||
| Actn1 | ACTN1_RAT | CSK | 2B only | 3 | 3 | ||
| Agap2 | AGAP2_RAT | 2B only | 3 | 3 | |||
| Snap91 | AP180_RAT | 2B only | 3 | 3 | |||
| Atp5f1 | AT5F1_RAT | 2B only | 3 | 3 | |||
| LOC681996 | B0BN63_RAT | 2B only | 3 | 3 | |||
| Arpc4 | B2RZ72_RAT | CSK | 2B only | 3 | 3 | ||
| Ndufa4 | B2RZD6_RAT | 2B only | 3 | 3 | |||
| Capza2 | CAZA2_RAT | CSK | 2B only | 3 | 3 | ||
| Chmp5 | CHMP5_RAT | ESCRT-III | 2B only | 3 | 3 | ||
| Rapgef4 | D3KR63_RAT | 2B only | 3 | 3 | |||
| Chmp6 | D3ZDR2_RAT | ESCRT-III | 2B only | 3 | 3 | ||
| Dclk1 | DCLK1_RAT | 2B only | 3 | 3 | |||
| Dlg4 | DLG4_RAT | PSD | 2B only | 3 | 3 | ||
| Dynll1 | DYL1_RAT | 2B only | 3 | 3 | |||
| H2a1c | H2A1C_RAT | 2B only | 3 | 3 | |||
| Prkar2b | KAP3_RAT | 2B only | 3 | 3 | |||
| Prkcg | KPCG_RAT | 2B only | 3 | 3 | |||
| Nckap1 | NCKP1_RAT | CSK | 2B only | 3 | 3 | ||
| Ndufs2 | NDUS2_RAT | 2B only | 3 | 3 | |||
| Ndufv2 | NDUV2_RAT | 2B only | 3 | 3 | |||
| Plec | PLEC_RAT | 2B only | 3 | 3 | |||
| Pura | PURA_RAT | 2B only | 3 | 3 | |||
| Pygb | PYGB_RAT | 2B only | 3 | 3 | |||
| Syt7 | Q99P34_RAT | 2B only | 3 | 3 | |||
| Rab2a | RAB2A_RAT | 2B only | 3 | 3 | |||
| Ran | RAN_RAT | 2B only | 3 | 3 | |||
| Dnm1 | DYN1_RAT | 8, 7 | 26 | 26 | 3 | 3 | |
| Atp2b1 | AT2B1_RAT | 8, 0 | 8 | 3 | (1) | (1) | |
| Nsf | NSF_RAT | 8, 0 | 16 | 16 | 2 | 2 | |
| Rab3c | RAB3C_RAT | 8, 0 | 8 | 4 | (1) | (1) | |
| Atp2b2 | AT2B2_RAT | 7, 0 | 7 | 3 | (1) | (1) | |
| Rab14 | RAB14_RAT | 7, 0 | 7 | 3 | (1) | (1) | |
| Rims1 | RIMS1_RAT | 7, 0 | 7 | 7 | (1) | (1) | |
| Syn2 | SYN2_RAT | 7, 0 | 7 | 4 | (1) | (1) | |
| Add2 | ADDB_RAT | CSK | 5, 0 | 5 | 4 | (1) | (1) |
| Atp5o | ATPO_RAT | 5, 0 | 5 | 5 | (1) | (1) | |
| RGD1307615 | D3ZKQ4_RAT | 5, 0 | 5 | 5 | (1) | (1) | |
| Sptan1 | E9PSZ3_RAT | CSK | 5, 0 | 35 | 35 | 7 | 7 |
| Immt | IMMT_RAT | 5, 0 | 5 | 5 | (1) | (1) | |
| Camk2b | KCC2B_RAT | PSD | 5, 0 | 30 | 13 | 6 | (1) |
| Aco2 | ACON_RAT | 2B only | 2 | 2 | |||
| Maoa | AOFA_RAT | 2B only | 2 | 2 | |||
| Ap3m2 | AP3M2_RAT | 2B only | 2 | 2 | |||
| Actr2 | ARP2_RAT | CSK | 2B only | 2 | 2 | ||
| Arpc5l | ARP5L_RAT | CSK | 2B only | 2 | 2 | ||
| Atad3 | ATAD3_RAT | 2B only | 2 | 2 | |||
| Cacna1a | CAC1A_RAT | 2B only | 2 | 2 | |||
| Cand1 | CAND1_RAT | 2B only | 2 | 2 | |||
| Crym | CRYM_RAT | 2B only | 2 | 2 | |||
| Caskin1 | CSKI1_RAT | 2B only | 2 | 2 | |||
| Atp5j2 | D3ZAF6_RAT | 2B only | 2 | 2 | |||
| Dsg1b | D3ZQ45_RAT | 2B only | 2 | 2 | |||
| Atp6v1a | D4A133_RAT | 2B only | 2 | 2 | |||
| Add3 | D4A3Q7_RAT | CSK | 2B only | 2 | 2 | ||
| Epb41l1 | E41L1_RAT | CSK | 2B only | 2 | 2 | ||
| Hadha | ECHA_RAT | 2B only | 2 | 2 | |||
| Ank3 | F1LP19_RAT | CSK | 2B only | 2 | 2 | ||
| Mrpl48 | F1LWB8_RAT | 2B only | 2 | 2 | |||
| Chmp2b | F1M8B7_RAT | ESCRT-III | 2B only | 2 | 2 | ||
| Gnb1 | GBB1_RAT | 2B only | 2 | 2 | |||
| Slc2a1 | GTR1_RAT | 2B only | 2 | 2 | |||
| Eif4a2 | IF4A2_RAT | 2B only | 2 | 2 | |||
| Kcnh1 | KCNH1_RAT | 2B only | 2 | 2 | |||
| Prkcb | KPCB_RAT | 2B only | 2 | 2 | |||
| Ldha | LDHA_RAT | 2B only | 2 | 2 | |||
| Mink1 | MINK1_RAT | 2B only | 2 | 2 | |||
| Grin2b | NMDE2_RAT | PSD | 2B only | 2 | 2 | ||
| Pdhb | ODPB_RAT | 2B only | 2 | 2 | |||
| Pde2a | PDE2A_RAT | 2B only | 2 | 2 | |||
| Mrps9 | Q5I0K4_RAT | 2B only | 2 | 2 | |||
| Ndufs7 | Q5RJN0_RAT | 2B only | 2 | 2 | |||
| Ndufv1 | Q5XIH3_RAT | 2B only | 2 | 2 | |||
| Uqcrc2 | QCR2_RAT | 2B only | 2 | 2 | |||
| Rab18 | RAB18_RAT | 2B only | 2 | 2 | |||
| Rab7a | RAB7A_RAT | 2B only | 2 | 2 | |||
| Rac1 | RAC1_RAT | 2B only | 2 | 2 | |||
| Mras | RASM_RAT | 2B only | 2 | 2 | |||
| Rpl23a | RL23A_RAT | 2B only | 2 | 2 | |||
| Rtn1 | RTN1_RAT | 2B only | 2 | 2 | |||
| Sept5 | SEPT5_RAT | CSK | 2B only | 2 | 2 | ||
| Sipa1l1 | SI1L1_RAT | 2B only | 2 | 2 | |||
| Ssbp1 | SSBP_RAT | 2B only | 2 | 2 | |||
| Stx1b | STX1B_RAT | 2B only | 2 | 2 | |||
Four hundred twenty-eight candidate proteins detected in the sample were filtered as described in Materials and Methods, yielding a list of 134 proteins, shown by order of decreasing spectral counts. The Note column points out ESCRT-III proteins, PSDs, and components of the spine actin cytoskeleton (CSK). SC, Spectral counts (cut- off 2); SSC, specific spectral counts (unique peptides); SC 2B/SC Control, ratio of spectral counts between specific and control immunoprecipitation (cut-off 5); 2B only, no peptides in control immunoprecipitation; (1), SSC = 1, insufficient for definite identification.