Background
Methods
DS-Sepharose resin synthesis
Mouse liver protein extraction
DS-affinity fractionation
Protein sequencing by mass spectrometry
Results
Fractionation of liver proteins by DS-affinity
Proteins with strong DS-affinity eluting at 1.0 M ionic strength
a
| ANA (antinuclear autoantigens) | Ref. | ||
---|---|---|---|---|
10 | IPI00329998.3 | H4 | Histone H4 | [8] |
6 | IPI00114642.4 | Hist1h2bj | Histone H2B type 1-F/J/L | [9] |
5 | IPI00153400.2 | H2afj | Histone H2A.J | [9] |
5 | IPI00111957.3 | Hist1h2ba | Histone H2B type 1-A | [9] |
4 | IPI00137852.5 | H2afy | Core histone macro-H2A.1 | [10] |
2 | IPI00404590.1 | H1f0 | Histone H1.0 | [11] |
3 | IPI00119220.1 | Snrpd2 | Small nuclear ribonucleoprotein Sm D2 | [12] |
2 | IPI00114052.1 | Snrpb | Small nuclear ribonucleoprotein-associated protein B | [13] |
2 | IPI00122350.4 | Snrpa | U1 small nuclear ribonucleoprotein A | [14] |
2 | IPI00133955.1 | Snrpe | Small nuclear ribonucleoprotein E | [15] |
3 | IPI00131988.1 | Mrpl49 | 39S ribosomal protein L49, mitochondria | [16] |
3 | IPI00311236.1 | Rpl7 | 60S ribosomal protein L7 | [17] |
2 | IPI00122421.5 | Rpl27 | 60S ribosomal protein L27 | [18] |
2 | IPI00222549.6 | Rpl30 | 60S ribosomal protein L30 | [16] |
3 | IPI00124287.1 | Pabpc1 | Polyadenylate-binding protein | [19] |
2 | IPI00119959.1 | Banf1 | Barrier-to-autointegration factor | [20] |
SMA (anti-smooth muscle autoantigens) / Cytoskeleton | ||||
6 | IPI00753793.2 | Spna2 | Isoform 2 of Spectrin alpha chain | [21] |
5 | IPI00123181.4 | Myh9 | Myosin-9 | [22] |
2 | IPI00109044.8 | G15Rik | Myosin light chain, regulatory B-like | [23] |
2 | IPI00354819.5 | Myl6 | Isoform Smooth muscle of Myosin light chain 6 | [24] |
2 | IPI00230435.1 | Lmna | Isoform C2 of Lamin-A | [25] |
AMA (anti-mitochondrial autoantigens) | ||||
13 | IPI00319992.1 | Hspa5 | 78 kDa glucose-regulated protein (Grp78) | [26] |
13 | IPI00114209.1 | Glud1 | Glutamate dehydrogenase 1, mitochondria | |
11 | IPI00131424.3 | Cpt2 | Carnitine O-palmitoyltransferase 2, mitochondria | |
6 | IPI00133903.1 | Hspa9 | Stress-70 protein, mitochondria (Grp75) | [29] |
3 | IPI00111908.8 | Cps1 | Carbamoyl-phosphate synthase [ammonia], mitochondria | |
3 | IPI00273146.1 | Chdh | Choline dehydrogenase, mitochondria | |
2 | IPI00129577.1 | Aifm1 | Apoptosis-inducing factor 1 (Aif, Pdcd8, programmed cell death protein 8), mitochondria | [30] |
LKM (liver-kidney microsomal autoantigens) | ||||
3 | IPI00111936.1 | Ugt1a9 | UDP-glucuronosyltransferase 1-9 (bilirubin-specific) | [31] |
3 | IPI00112322.2 | Ugt2b5 | UDP glucuronosyltransferase 2 family, polypeptide B5 | [32] |
2 | IPI00230113.5 | Cyb5 | Microsomal cytochrome b5 | [33] |
2 | IPI00131771.3 | Cox6c | Cytochrome c oxidase subunit 6c | |
2 | IPI00169666.3 | Ugt2b34 | UDP glucuronosyltransferase 2 family, polypeptide B3 | [32] |
2 | IPI00230108.6 | Pdia3 | Protein disulfide-isomerase A | [34] |
2 | IPI00134746.5 | Ass1 | Argininosuccinate synthase | |
2 | IPI00387289.3 | Ces3 | Carboxylesterase | [35] |
Peroxisomal proteins | ||||
3 | IPI00112549.1 | Acsl1 | Long-chain-fatty-acid-CoA ligase | |
2 | IPI00312058.5 | Cat | Catalase | |
2 | IPI00223367.5 | Uox | Uricase | |
2 | IPI00125325.1 | Decr2 | Peroxisomal 2,4-dienoyl-CoA reductase | |
2 | IPI00125813.1 | Dpp4 | Dipeptidyl peptidase (CD26) |
Proteins with moderate DS-affinity eluting at 0.6 M ionic strength
a
| ANA (antinuclear autoantigens) | Ref. | ||
---|---|---|---|---|
8 | IPI00230730.4 | Hist2h3b | Histone H3.2 | [41] |
4 | IPI00223713.5 | Hist1h1c | Histone H1.2 | [42] |
2 | IPI00459318.1 | Hist1h2bp | Putative uncharacterized protein, histone | [9] |
2 | IPI00136632.3 | H2afy3 | Histone H2A member Y3 | [43] |
2 | IPI00320149.2 | H2afv | Histone H2A member V | [9] |
6 | IPI00308706.4 | Rpl5 | 60S ribosomal protein L5 | |
5 | IPI00127085.6 | Rpl10a | 60S ribosomal protein L10a | |
3 | IPI00555113.2 | Rpl18 | 60S ribosomal protein L18 | |
3 | IPI00138892.2 | Uba52 | Ubiquitin-60S ribosomal protein L40 | |
2 | IPI00122598.3 | EG382723 | Similar to ribosomal protein L10 | |
5 | IPI00339468.4 | Dhx9 | Isoform 2 of ATP-dependent RNA helicase, DNA helicase II | [44] |
4 | IPI00121596.3 | Prpf8 | Pre-mRNA-processing-splicing factor 8 | |
3 | IPI00109764.2 | Top1 | DNA topoisomerase 1 (Scl-70) | [45] |
2 | IPI00322749.3 | Snrpd1 | Small nuclear ribonucleoprotein Sm D1 | [46] |
2 | IPI00120162.1 | Csnk2a1 | Casein kinase II subunit alpha | [17] |
SMA (anti-smooth muscle autoantigens) / Cytoskeleton | ||||
6 | IPI00400300.1 | Lmna | Isoform C of Lamin-A | [47] |
4 | IPI00113886.1 | Lmnb2 | Isoform B3 of Lamin-B | [48] |
2 | IPI00126191.5 | Lmnb2 | Isoform B2 of Lamin-B | [49] |
2 | IPI00113824.1 | Hspg2 | Basement membrane-specific heparan sulfate proteoglycan core protein | [50] |
AMA (anti-mitochondrial autoantigens) | ||||
5 | IPI00331555.2 | Bckdha | Branched chain keto acid dehydrogenase E1, alpha polypeptide (mitochondrion matrix) | [51] |
5 | IPI00111877.1 | Ssbp1 | Single-stranded DNA-binding protein, mitochondria | |
4 | IPI00153144.3 | Suox | Sulfite oxidase, mitochondria | [52] |
3 | IPI00133208.3 | Hspa1l | Heat shock 70 kDa protein 1L | [53] |
2 | IPI00323357.3 | Hspa8 | Heat shock cognate 71 kDa protein | [54] |
3 | IPI00420718.4 | Hmgcs2 | Hydroxymethylglutaryl-CoA synthase, mitochondria | [27] |
3 | IPI00223092.5 | Hadha | Trifunctional enzyme subunit alpha, mitochondria | |
3 | IPI00135651.1 | Slc25a13 | Calcium-binding mitochondrial carrier protein Aralar2 | |
3 | IPI00111885.1 | Uqcrc1 | Cytochrome b-c1 complex subunit 1, mitochondria | [33] |
3 | IPI00132799.4 | C1qbp | Complement component 1 q subcomponent binding protein | |
2 | IPI00127841.3 | Slc25a5 | ADP/ATP translocase (mitochondrion inner membrane) | |
2 | IPI00387379.1 | Decr1 | 2,4-dienoyl-CoA reductase, mitochondria | |
LKM (liver-kidney microsomal autoantigens) | ||||
6 | IPI00117914.3 | Arg1 | Arginase-1 | [55] |
6 | IPI00115679.1 | Ganab | Isoform 2 of Neutral alpha-glucosidase A | [56] |
4 | IPI00621548.2 | Por | NADPH-cytochrome P450 reductase | [57] |
4 | IPI00134691.3 | Ugt1a1 | UDP-glucuronosyltransferase 1-1 | [58] |
2 | IPI00110556.1 | Cyp2e1 | Cytochrome P450 2E1 | |
2 | IPI00321644.3 | Cyp2d26 | Cytochrome P450 2D26 (mouse) (LKM1 human) | [31] |
Peroxisomal proteins | ||||
6 | IPI00127558.3 | Acox1 | Peroxisomal acyl-coenzyme A oxidase | |
6 | IPI00127276.1 | Ehhadh | Enoyl-Coenzyme A hydratase/3-hydroxyacyl CoA dehydrogenase (peroxisomal bifunctional enzyme) | [16] |
2 | IPI00331628.5 | Hsd17b4 | Peroxisomal multifunctional enzyme type (17 beta-hydroxysteroid dehydrogenase type 4) | [61] |
Miscellaneous | ||||
4 | IPI00115599.6 | Hsd11b1 | Corticosteroid 11-beta-dehydrogenase isozyme | |
3 | IPI00117705.1 | Ddost | Dolichyl-diphosphooligosaccharide-protein glycosyltransferase 48 kDa subunit | |
3 | IPI00313236.3 | Slc27a5 | Bile acyl-CoA synthetase | |
2 | IPI00309035.2 | Rpn1 | Dolichyl-diphosphooligosaccharide-protein glycosyltransferase subunit 1 (ribophorin 1) | |
2 | IPI00127016.1 | Hsd17b6 | Hydroxysteroid 17-beta dehydrogenase | [62] |
2 | IPI00130985.1 | Rdh7 | Retinol dehydrogenase |
Proteins with weak DS-affinity eluting at 0.4 M ionic strength
a
| ANA (antinuclear autoantigens) | Ref. | ||
---|---|---|---|---|
19 | IPI00122011.2 | Sf3b3 | Isoform 1 of Splicing factor 3B subunit | [63] |
14 | IPI00420807.3 | Sfrs1 | Isoform 1 of Splicing factor, arginine/serine-rich | |
2 | IPI00153743.1 | Sfrs7 | Isoform 2 of Splicing factor, arginine/serine-rich | |
4 | IPI00123604.4 | Rpsa | 40S ribosomal protein SA | |
3 | IPI00469260.3 | Eftud2 | 116 kDa U5 small nuclear ribonucleoprotein component | [64] |
2 | IPI00170008.1 | Snrpa1 | U2 small nuclear ribonucleoprotein A | [65] |
2 | IPI00114052.1 | Snrpb | Small nuclear ribonucleoprotein-associated protein | [13] |
2 | IPI00119220.1 | Snrpd2 | Small nuclear ribonucleoprotein Sm D2 | [66] |
2 | IPI00226073.2 | Hnrnpf | Isoform 1 of Heterogeneous nuclear ribonucleoprotein F | |
2 | IPI00109860.3 | Rbm8a | Isoform 2 of RNA-binding protein 8 | |
SMA (anti-smooth muscle autoantigens)/Cytoskeleton | ||||
19 | IPI00123316.1 | Tpm1 | Isoform 1 of Tropomyosin alpha-1 chain | [67] |
13 | IPI00169707.2 | Tpm3 | Tropomyosin 3, gamm | [68] |
9 | IPI00230044.5 | Tpm3 | Isoform 2 of Tropomyosin alpha-3 chain | |
2 | IPI00421223.3 | Tpm4 | Tropomyosin alpha-4 chain | [69] |
13 | IPI00118899.1 | Actn4 | Alpha-actinin | [70] |
9 | IPI00113539.2 | Fn1 | Fibronectin | [71] |
7 | IPI00110850.1 | Actb | Actin, cytoplasmic | [72] |
6 | IPI00110827.1 | Acta1 | Actin, alpha skeletal muscle | [72] |
7 | IPI00265380.4 | Myh8 | Myosin-8 | [73] |
3 | IPI00129404.1 | Myh6 | Myosin-6 | |
3 | IPI00114894.1 | Myh11 | Isoform 1 of Myosin-1 | |
5 | IPI00230394.5 | Lmnb1 | Lamin-B | [74] |
4 | IPI00121892.9 | Spnb2 | Isoform 2 of Spectrin beta chain | [75] |
3 | IPI00227299.6 | Vim | Vimentin | [69] |
2 | IPI00109061.1 | Tubb2b | Tubulin beta-2B chain | [76] |
AMA (anti-mitochondrial autoantigens) | ||||
52 | IPI00129526.1 | Hsp90b1 | Endoplasmin | [26] |
9 | IPI00229080.7 | Hsp90ab1 | MCG1823 | |
4 | IPI00330804.4 | Hsp90aa1 | Heat shock protein HSP 90-alpha | |
39 | IPI00136213.5 | Sardh | Sarcosine dehydrogenase, mitochondrial | |
31 | IPI00468481.2 | Atp5b | ATP synthase subunit beta, mitochondrial | [77] |
21 | IPI00130280.1 | Atp5a1 | ATP synthase subunit alpha, mitochondrial | |
27 | IPI00471246.2 | Ivd | Isovaleryl-CoA dehydrogenase, mitochondrial | |
17 | IPI00134809.2 | Dlst | Isoform 1 of Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex, mitochondrial | [78] |
2 | IPI00756386.1 | Dhtkd1 | Probable 2-oxoglutarate dehydrogenase E1 component DHKTD1, mitochondrial | |
13 | IPI00331564.2 | Dld | Dihydrolipoyl dehydrogenase | |
7 | IPI00130535.1 | Dbt | Lipoamide acyltransferase component of branched-chain alpha-keto acid dehydrogenase complex, mitochondrial | [78] |
3 | IPI00153660.4 | Dlat | Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex, mitochondrial | |
13 | IPI00387491.1 | Aass | Alpha-aminoadipic semialdehyde synthase, mitochondrial | |
13 | IPI00468653.4 | Pccb | Propionyl-CoA carboxylase beta chain, mitochondrial | |
12 | IPI00330523.1 | Pcca | Propionyl-CoA carboxylase alpha chain, mitochondrial | |
11 | IPI00110843.3 | Agmat | Agmatinase, mitochondrial | |
9 | IPI00114710.2 | Pcx | Pyruvate carboxylase, mitochondrial isoform 2 | |
7 | IPI00111218.1 | Aldh2 | Aldehyde dehydrogenase, mitochondrial | [27] |
4 | IPI00226430.2 | Acaa2 | 3-Ketoacyl-CoA thiolase, mitochondrial | |
3 | IPI00119766.1 | Rdh16 | Retinol dehydrogenase 1 | |
3 | IPI00405699.2 | Aldh4a1 | Delta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial | |
3 | IPI00121309.2 | Ndufs3 | NADH dehydrogenase [ubiquinone] iron-sulfur protein 3, mitochondrial | |
3 | IPI00753303.2 | Npl22 | Dihydrodipicolinate synthase-like, mitochondrial | |
3 | IPI00169862.1 | Coq9 | Ubiquinone biosynthesis protein COQ9, mitochondrial | |
2 | IPI00323592.2 | Mdh2 | Malate dehydrogenase, mitochondrial | |
2 | IPI00121105.2 | Hadh | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | |
2 | IPI00459725.2 | Idh3a | Isoform 1 of Isocitrate dehydrogenase [NAD] subunit alpha, mitochondrial | [79] |
2 | IPI00133553.1 | Mut | Methylmalonyl-CoA mutase, mitochondrial | |
2 | IPI00115607.3 | Hadhb | Trifunctional enzyme subunit beta, mitochondrial | |
2 | IPI00130804.1 | Ech1 | Delta(3,5)-Delta(2,4)-dienoyl-CoA isomerase, mitochondrial | [80] |
2 | IPI00469195.2 | Echdc2 | Isoform 1 of Enoyl-CoA hydratase domain-containing protein 2, mitochondrial | |
2 | IPI00314909.2 | Agxt | Alanine-glyoxylate aminotransferase | |
2 | IPI00226140.5 | Maob | Amine oxidase [flavin-containing] | [81] |
2 | IPI00121440.4 | Etfb | Electron transfer flavoprotein subunit beta | [82] |
2 | IPI00454008.1 | Shmt2 | Serine hydroxymethyltransferase | |
LKM (liver-kidney microsomal autoantigens) | ||||
54 | IPI00309073.2 | Mttp | Microsomal triglyceride transfer protein | |
33 | IPI00153317.3 | Aldh1l1 | 10-formyltetrahydrofolate dehydrogenase | |
10 | IPI00111936.1 | Ugt1a9 | UDP-glucuronosyltransferase 1-9 | [31] |
8 | IPI00762897.2 | Ugcgl1 | UDP-glucose:glycoprotein glucosyltransferase | |
3 | IPI00127223.3 | Ugt2b36 | UDP-glucuronosyltransferase | |
3 | IPI00114778.1 | Cyp2c37 | Cytochrome P450 2C37 | [83] |
3 | IPI00131176.1 | mt-Co2 | Cytochrome c oxidase subunit 2 | |
2 | IPI00323908.1 | Cyp2d10 | Cytochrome P450 2D10 | [83] |
3 | IPI00331322.3 | Mgst1 | Microsomal glutathione S-transferase | |
9 | IPI00115867.4 | Ces1 | Liver carboxylesterase | [35] |
Peroxisomal proteins | ||||
6 | IPI00331596.6 | Pecr | Peroxisomal trans-2-enoyl-CoA reductase | |
3 | IPI00134870.3 | Acox2 | Peroxisomal acyl-coenzyme A oxidase | |
5 | IPI00110719.1 | Pipox | Peroxisomal sarcosine oxidase | [84] |
2 | IPI00130924.1 | Slc27a2 | Very long-chain acyl-CoA synthetaselow-den | |
2 | IPI00121833.3 | Acaa1a | Acaa1b 3-ketoacyl-CoA thiolase A, peroxisomal | |
2 | IPI00111235.2 | Aldh3a2 | Fatty aldehyde dehydrogenase variant | |
Apoptosis | ||||
9 | IPI00310240.4 | Anxa6 | Annexin A6 isoform | [85] |
5 | IPI00116498.1 | Ywhaz | 14-3-3 protein zeta/delta | [86] |
5 | IPI00118384.1 | Ywhae | 14-3-3 protein epsilon | [87] |
5 | IPI00230707.6 | Ywhag | 14-3-3 protein gamma | [87] |
Proteasome | ||||
8 | IPI00113845.1 | Psmb1 | Proteasome subunit beta type-1 | [88] |
4 | IPI00119239.2 | Psmb6 | Proteasome subunit beta type-6 | |
3 | IPI00116712.1 | Psmb8 | Proteasome subunit beta type-8 | |
2 | IPI00128945.1 | Psmb2 | Proteasome subunit beta type-2 | |
2 | IPI00129512.3 | Psmb4 | Proteasome subunit beta type-4 | |
2 | IPI00136483.1 | Psmb7 | Proteasome subunit beta type-7 | |
5 | IPI00331644.5 | Psma3 | Proteasome subunit alpha type-3 | [88] |
4 | IPI00109122.1 | Psma8 | Proteasome subunit alpha type-7-like | |
4 | IPI00131845.1 | Psma6 | Proteasome subunit alpha type-6 | |
4 | IPI00420745.7 | Psma2 | Proteasome subunit alpha type-2 | |
4 | IPI00277001.4 | Psma4 | Proteasome subunit alpha type-4 | [89] |
Miscellaneous | ||||
68 | IPI00123639.1 | Calr | Calreticulin | [77] |
67 | IPI00271951.5 | Pdia4 | Protein disulfide isomerase A | |
61 | IPI00122815.3 | P4hb | Protein disulfide-isomerase | [90] |
17 | IPI00222496.3 | Pdia6 | Putative uncharacterized protein | |
2 | IPI00163011.2 | Txndc5 | Thioredoxin domain-containing protein | |
20 | IPI00119618.1 | Canx | Calnexin | [91] |
18 | IPI00622235.5 | Vcp | Transitional endoplasmic reticulum ATPase | [92] |
14 | IPI00125514.1 | Entpd5 | Ectonucleoside triphosphate diphosphohydrolase 5 | |
11 | IPI00475154.1 | Rpn2 | Dolichyl-diphosphooligosaccharide-protein glycosyltransferase subunit | |
2 | IPI00309035.2 | Rpn1 | Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit | |
11 | IPI00112719.1 | Alad | Delta-aminolevulinic acid dehydratase | |
10 | IPI00115680.1 | Prkcsh | Isoform 1 of Glucosidase 2 subunit beta | |
7 | IPI00119063.2 | Lrp1 | Pro-low-density lipoprotein receptor-related protein (alpha-2-macroglobulin receptor, apolipoprotein E receptor) | |
2 | IPI00624663.3 | Pzp | Alpha-2-macroglobulin | |
7 | IPI00135512.1 | Cnpy2 | Protein canopy homolog 2 | |
6 | IPI00316314.1 | Hacl1 | 2-hydroxyacyl-CoA lyase | |
6 | IPI00116254.1 | Prdx4 | Peroxiredoxin-4 | [93] |
6 | IPI00125899.1 | Ctnnb1 | Catenin beta-1 | |
4 | IPI00112963.1 | Ctnna1 | Catenin alpha-1 | [94] |
5 | IPI00113869.1 | Bsg | Isoform 2 of Basigin (M6, EMMPRIN, TCSF, CD147) | |
4 | IPI00126184.7 | Gc | Vitamin D-binding protein | [95] |
4 | IPI00123342.4 | Hyou1 | Hypoxia up-regulated protein | |
3 | IPI00130950.1 | Bhmt | Betaine--homocysteine S-methyltransferase | [96] |
3 | IPI00134058.3 | Erp44 | Endoplasmic reticulum resident protein ERp44 | |
3 | IPI00387282.4 | Aadac | Arylacetamide deacetylase | |
3 | IPI00122346.2 | Ssr4 | Signal sequence receptor, delta | |
3 | IPI00317740.5 | Gnb2l1 | Guanine nucleotide-binding protein subunit beta-2-like | |
3 | IPI00319973.3 | Pgrmc1 | Membrane-associated progesterone receptor component | |
2 | IPI00279218.1 | Apeh | Isoform 2 of Acylamino-acid-releasing enzyme | |
2 | IPI00323624.3 | C3 | Isoform Long of Complement C3 | [97] |
2 | IPI00116432.1 | Fmo1 | Dimethylaniline monooxygenase [N-oxide-forming] | |
2 | IPI00114044.1 | Man2a1 | Alpha-mannosidase | |
2 | IPI00312018.6 | Mlec | Malectin | |
2 | IPI00115241.1 | Mup4 | Major urinary protein 4 |