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Table 4. Candidate endoplasmic reticulum-associated degradation (ERAD) substrate proteins
|
A |
B |
C |
A |
B |
C |
||||
|
Cytoskeleton/ cell wall |
Chs2p |
0 |
4 |
0 |
Protein glycosylation/ lipid modification |
Pmt2p |
0 |
2 |
0 |
|
Rho3p |
0 |
3 |
0 |
Wbp1p |
0 |
3 |
0 |
||
|
Chs1p |
0 |
3 |
0 |
Gpi16p |
0 |
2 |
0 |
||
|
DNA replication/ transcription |
Cdc47p |
0 |
2 |
0 |
Pmt4p |
0 |
6 |
2 |
|
|
Rpo21p* |
1 |
5 |
1 |
Alg9p |
0 |
3 |
0 |
||
|
Tra1p |
1 |
3 |
1 |
Ecm39p |
0 |
2 |
0 |
||
|
Imp2p† |
0 |
2 |
0 |
Ost3p |
0 |
2 |
0 |
||
|
Mga2p |
0 |
2 |
0 |
Ubiquitin/ proteasome pathway |
Cdc48p |
2 |
6 |
2 |
|
|
Spt23p |
0 |
3 |
0 |
Ufd2p |
0 |
7 |
1 |
||
|
Lipid/ergosterol metabolism |
Lcb2p |
0 |
2 |
0 |
Rpn3p |
0 |
2 |
0 |
|
|
Sur2p |
0 |
2 |
0 |
Ubc6p |
0 |
4 |
0 |
||
|
Scs2p |
0 |
2 |
0 |
Ddi1p* |
0 |
7 |
0 |
||
|
Scs3p |
0 |
3 |
1 |
Ubr1p |
0 |
4 |
1 |
||
|
Erg1p* |
6 |
19 |
2 |
Ssm4p |
4 |
19 |
8 |
||
|
Ncp1p* |
0 |
11 |
2 |
Cue1p |
0 |
2 |
0 |
||
|
Erg9p |
0 |
7 |
0 |
Cue5p |
0 |
2 |
0 |
||
|
Tor2p |
0 |
5 |
0 |
Vesicle transport/ trafficking |
YAL048Cp |
0 |
4 |
0 |
|
|
YLL012Wp |
0 |
3 |
0 |
Erp1p |
0 |
2 |
0 |
||
|
Erg27p |
0 |
3 |
1 |
Sec27p |
0 |
2 |
0 |
||
|
YML125Cp |
0 |
2 |
0 |
Emp24p |
0 |
2 |
0 |
||
|
Membrane transporter/ permease/pump |
Snq2p |
0 |
19 |
4 |
Gvp36p |
2 |
5 |
0 |
|
|
Dnf2p |
0 |
2 |
0 |
Vps13p |
0 |
2 |
0 |
||
|
Pmc1p |
1 |
3 |
0 |
Gsf2p |
0 |
3 |
0 |
||
|
Hip1p |
1 |
4 |
0 |
Cvt19p |
0 |
4 |
0 |
||
|
Yor1p |
1 |
10 |
2 |
Nce102p |
0 |
2 |
0 |
||
|
Neo1p |
0 |
5 |
0 |
Other |
Gdh3p |
0 |
2 |
0 |
|
|
Gap1p* |
0 |
3 |
1 |
Gly1p* |
0 |
8 |
0 |
||
|
Bpt1p |
0 |
5 |
1 |
Nup145p |
0 |
2 |
0 |
||
|
Ccc1p |
1 |
5 |
0 |
Eno2p |
0 |
2 |
0 |
||
|
YMR166Cp |
0 |
2 |
0 |
Asi2p |
0 |
2 |
0 |
||
|
Pdr12p |
0 |
5 |
0 |
Gdh1p |
1 |
4 |
0 |
||
|
Protein synthesis/ translocation/ folding |
Pth2p* |
2 |
6 |
1 |
Gln1p* |
3 |
9 |
4 |
|
|
Ssh1p |
0 |
2 |
0 |
Unknown |
Cos2p* |
1 |
10 |
3 |
|
|
Pdi1p |
0 |
2 |
0 |
YIL108Wp |
0 |
12 |
5 |
||
|
Rps20p* |
0 |
2 |
0 |
Yet1p* |
0 |
2 |
0 |
||
|
Sec11p |
0 |
3 |
0 |
YKL100Cp |
0 |
3 |
0 |
||
|
Kar2p |
0 |
4 |
0 |
Ssh4p |
0 |
5 |
1 |
||
|
Ero1p |
0 |
4 |
0 |
YNL058Cp |
0 |
3 |
0 |
||
|
Sis1p |
0 |
4 |
1 |
||||||
|
Hsp82p |
1 |
3 |
0 |
||||||
Columns to the right of each candidate protein show the number of identified unique peptides in the WT (A), npl4-1 (B), and npl4-1∆ubc7 (C) data sets; Shades of gray are proportional to the number of peptides identified.
*An identified ubiquitination site.
†Encoded by YIL154C.
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