Table 1.
The differentially expressed ubiquitinated sites and proteins in ubiquitylome of postmenopausal osteoporosis patients and healthy postmenopausal women
| Protein accession | Ratio | Regulated type | Protein description | Gene name | Score |
|---|---|---|---|---|---|
| P02656 | 0.212 | Down | Apolipoprotein C‐III | APOC3 | 161.24 |
| O43765 | 0.564 | Down | Small glutamine‐rich tetratricopeptide repeat‐containing protein alpha | SGTA | 131.66 |
| P00918 | 0.608 | Down | Carbonic anhydrase 2 | CA2 | 125.73 |
| Q04323 | 0.26 | Down | UBX domain‐containing protein 1 | UBXN1 | 88.708 |
| Q9P107 | 13.569 | Up | GEM‐interacting protein | GMIP | 50.314 |
| P02675 | 0.373 | Down | Fibrinogen beta chain | FGB | 117.84 |
| P02675 | 0.192 | Down | Fibrinogen beta chain | FGB | 132.81 |
| P00736 | 0.115 | Down | Complement C1r subcomponent | C1R | 70.165 |
| P21980 | 0.595 | Down | Protein‐glutamine gamma‐glutamyltransferase 2 | TGM2 | 102.53 |
| Q9BQE3 | 0.276 | Down | Tubulin alpha‐1C chain | TUBA1C | 137.18 |
| Q9BQE3 | 0.546 | Down | Tubulin alpha‐1C chain | TUBA1C | 115.54 |
| Q9BQE3 | 0.611 | Down | Tubulin alpha‐1C chain | TUBA1C | 70.783 |
| Q9BQE3 | 0.416 | Down | Tubulin alpha‐1C chain | TUBA1C | 95.618 |
| Q9BQE3 | 0.122 | Down | Tubulin alpha‐1C chain | TUBA1C | 119.39 |
| P10599 | 0.336 | Down | Thioredoxin | TXN | 92.19 |
| P02774 | 0.121 | Down | Vitamin D‐binding protein | GC | 50.786 |
| P15153 | 0.09 | Down | Ras‐related C3 botulinum toxin substrate 2 | RAC2 | 50.108 |
| P02647 | 0.483 | Down | Apolipoprotein A‐I | APOA1 | 247.38 |
| P28066 | 0.23 | Down | Proteasome subunit alpha type‐5 | PSMA5 | 161.68 |
| P32119 | 26.6 | Up | Peroxiredoxin‐2 | PRDX2 | 92.039 |
| P32119 | 0.696 | Down | Peroxiredoxin‐2 | PRDX2 | 145.46 |
| Q13228 | 5.732 | Up | Selenium‐binding protein 1 | SELENBP1 | 141.07 |
| P63104 | 0.564 | Down | 14‐3‐3 protein zeta/delta | YWHAZ | 199.8 |
| P16157 | 0.589 | Down | Ankyrin‐1 | ANK1 | 150.11 |
| P16157 | 0.525 | Down | Ankyrin‐1 | ANK1 | 220.63 |
| P16157 | 0.184 | Down | Ankyrin‐1 | ANK1 | 154.72 |
| P16157 | 0.384 | Down | Ankyrin‐1 | ANK1 | 271.08 |
| P16157 | 2.199 | Up | Ankyrin‐1 | ANK1 | 122.28 |
| P16157 | 1.482 | Up | Ankyrin‐1 | ANK1 | 239.87 |
| P02649 | 0.183 | Down | Apolipoprotein E | APOE | 160.18 |
| Q14687 | 0.598 | Down | Genetic suppressor element 1 | GSE1 | 116.54 |
| P20618 | 0.416 | Down | Proteasome subunit beta type‐1 | PSMB1 | 132.13 |
| P02671 | 0.805 | Down | Fibrinogen alpha chain | FGA | 81.017 |
| P02671 | 0.554 | Down | Fibrinogen alpha chain | FGA | 71.153 |
| P04040 | 2.279 | Up | Catalase | CAT | 109.83 |
| P00441 | 0.442 | Down | Superoxide dismutase [Cu‐Zn] | SOD1 | 80.96 |
| Q9C0C9 | 1.597 | Up | (E3‐independent) E2 ubiquitin‐conjugating enzyme | UBE2O | 112.26 |
| Q9C0C9 | 4.967 | Up | (E3‐independent) E2 ubiquitin‐conjugating enzyme | UBE2O | 68.536 |
| Q9C0C9 | 0.581 | Down | (E3‐independent) E2 ubiquitin‐conjugating enzyme | UBE2O | 97.597 |
| Q9C0C9 | 4.099 | Up | (E3‐independent) E2 ubiquitin‐conjugating enzyme | UBE2O | 88.021 |
| Q9C0C9 | 0.809 | Down | (E3‐independent) E2 ubiquitin‐conjugating enzyme | UBE2O | 124.21 |
| P62258 | 0.227 | Down | 14–3‐3 protein epsilon | YWHAE | 76.847 |
| P25789 | 0.473 | Down | Proteasome subunit alpha type‐4 | PSMA4 | 105.2 |
| P25789 | 0.349 | Down | Proteasome subunit alpha type‐4 | PSMA4 | 127.56 |
| P27348 | 0.36 | Down | 14‐3‐3 protein theta | YWHAQ | 120.46 |
| P22314 | 95.567 | Up | Ubiquitin‐like modifier‐activating enzyme 1 | UBA1 | 168.62 |
| P22314 | 0.166 | Down | Ubiquitin‐like modifier‐activating enzyme 1 | UBA1 | 118.32 |
| P28070 | 0.489 | Down | Proteasome subunit beta type‐4 | PSMB4 | 205.62 |
| P23634 | 0.405 | Down | Plasma membrane calcium‐transporting ATPase 4 | ATP2B4 | 85.355 |
| P0C0L4 | 0.43 | Down | Complement C4‐A | C4A | 109.71 |
| P62158 | 12.941 | Up | Calmodulin | CALM1 | 62.099 |
| P30153 | 1.362 | Up | Serine/threonine‐protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform | PPP2R1A | 120.03 |
| Q96BN8 | 0.071 | Down | Ubiquitin thioesterase otulin | OTULIN | 109.07 |
| P11171 | 0.457 | Down | Protein 4.1 | EPB41 | 184.24 |
| P11171 | 2.742 | Up | Protein 4.1 | EPB41 | 63.691 |
| P11171 | 0.416 | Down | Protein 4.1 | EPB41 | 125.97 |
| P11171 | 0.266 | Down | Protein 4.1 | EPB41 | 54.772 |
| P67775 | 0.352 | Down | Serine/threonine‐protein phosphatase 2A catalytic subunit alpha isoform | PPP2CA | 78.149 |
| P02042 | 1.625 | Up | Hemoglobin subunit delta | HBD | 120.23 |
| P68036 | 1.742 | Up | Ubiquitin‐conjugating enzyme E2 L3 | UBE2L3 | 90.793 |
| P16452 | 1.313 | Up | Erythrocyte membrane protein band 4.2 | EPB42 | 360.48 |
| P16452 | 0.72 | Down | Erythrocyte membrane protein band 4.2 | EPB42 | 189.43 |
| P02652 | 0.223 | Down | Apolipoprotein A‐II | APOA2 | 89.123 |
| P02652 | 0.568 | Down | Apolipoprotein A‐II | APOA2 | 124.12 |
| P02765 | 0.573 | Down | Alpha‐2‐HS‐glycoprotein | AHSG | 134.99 |
| P40925 | 4.17 | Up | Malate dehydrogenase, cytoplasmic | MDH1 | 95.531 |
| P54727 | 0.629 | Down | UV excision repair protein RAD23 homolog B | RAD23B | 167.89 |
| P54252 | 0.464 | Down | Ataxin‐3 | ATXN3 | 72.315 |
| P05198 | 0.564 | Down | Eukaryotic translation initiation factor 2 subunit 1 | EIF2S1 | 103.02 |
| Q04917 | 0.154 | Down | 14–3‐3 protein eta | YWHAH | 54.259 |
| P00491 | 1.549 | Up | Purine nucleoside phosphorylase | PNP | 140.96 |
| Q13875 | 2.37 | Up | Myelin‐associated oligodendrocyte basic protein | MOBP | 73.233 |
| Q13875 | 2.37 | Up | Myelin‐associated oligodendrocyte basic protein | MOBP | 73.233 |
| P01857 | 0.489 | Down | Ig gamma‐1 chain C region | IGHG1 | 156.7 |
| P27169 | 0.147 | Down | Serum paraoxonase/arylesterase 1 | PON1 | 55.064 |
| O15554 | 1.412 | Up | Intermediate conductance calcium‐activated potassium channel protein 4 | KCNN4 | 47.039 |
| P05154 | 0.405 | Down | Plasma serine protease inhibitor | SERPINA5 | 119.68 |
| Q5T4S7 | 0.751 | Down | E3 ubiquitin‐protein ligase UBR4 | UBR4 | 98.175 |
| Q5T4S7 | 0.263 | Down | E3 ubiquitin‐protein ligase UBR4 | UBR4 | 75.764 |
| P25786 | 0.528 | Down | Proteasome subunit alpha type‐1 | PSMA1 | 169.89 |
| P49720 | 0.326 | Down | Proteasome subunit beta type‐3 | PSMB3 | 190.26 |
| Q58WW2 | 0.464 | Down | DDB1‐ and CUL4‐associated factor 6 | DCAF6 | 121.61 |
| Q58WW2 | 0.327 | Down | DDB1‐ and CUL4‐associated factor 6 | DCAF6 | 147.4 |
| P02549 | 1.491 | Up | Spectrin alpha chain, erythrocytic 1 | SPTA1 | 156.67 |
| P02549 | 4.173 | Up | Spectrin alpha chain, erythrocytic 1 | SPTA1 | 124.08 |
| P02549 | 0.779 | Down | Spectrin alpha chain, erythrocytic 1 | SPTA1 | 155.66 |
| P02549 | 0.624 | Down | Spectrin alpha chain, erythrocytic 1 | SPTA1 | 156.36 |
| P02549 | 0.687 | Down | Spectrin alpha chain, erythrocytic 1 | SPTA1 | 228.19 |
| P02549 | 0.301 | Down | Spectrin alpha chain, erythrocytic 1 | SPTA1 | 158.29 |
| P61088 | 2.626 | Up | Ubiquitin‐conjugating enzyme E2 N | UBE2N | 190.41 |
| P54725 | 0.532 | Down | UV excision repair protein RAD23 homolog A | RAD23A | 168.59 |
| Q00610 | 0.208 | Down | Clathrin heavy chain 1 | CLTC | 65.231 |
| P29144 | 0.572 | Down | Tripeptidyl‐peptidase 2 | TPP2 | 104.18 |
| P51811 | 0.666 | Down | Membrane transport protein XK | XK | 138.89 |
| Q9BSL1 | 9.707 | Up | Ubiquitin‐associated domain‐containing protein 1 | UBAC1 | 180.88 |
| P04075 | 0.53 | Down | Fructose‐bisphosphate aldolase A | ALDOA | 139.47 |
| P02743 | 0.338 | Down | Serum amyloid P‐component | APCS | 121.99 |
| Q16531 | 10.591 | Up | DNA damage‐binding protein 1 | DDB1 | 123.63 |
| Q5VW32 | 0.264 | Down | BRO1 domain‐containing protein BROX | BROX | 57.532 |
| P30043 | 0.511 | Down | Flavin reductase (NADPH) | BLVRB | 187.78 |
| P62987 | 0.595 | Down | Ubiquitin‐60S ribosomal protein L40 | UBA52 | 136.96 |
| P45974 | 0.742 | Down | Ubiquitin carboxyl‐terminal hydrolase 5 | USP5 | 173.72 |
| P02655 | 0.238 | Down | Apolipoprotein C‐II | APOC2 | 80.585 |
| O14818 | 0.484 | Down | Proteasome subunit alpha type‐7 | PSMA7 | 56.916 |
| Q15843 | 9.91 | Up | NEDD8 | NEDD8 | 206.18 |
| Q15843 | 3.159 | Up | NEDD8 | NEDD8 | 207.82 |
| Q15843 | 13.049 | Up | NEDD8 | NEDD8 | 84.365 |
| P13716 | 0.402 | Down | Delta‐aminolevulinic acid dehydratase | ALAD | 53.453 |
| Q9NR09 | 0.242 | Down | Baculoviral IAP repeat‐containing protein 6 | BIRC6 | 45.357 |
| P0CG05 | 0.383 | Down | Ig lambda‐2 chain C regions | IGLC2 | 131.82 |
| Q96GG9 | 0.645 | Down | DCN1‐like protein 1 | DCUN1D1 | 120.76 |
| P55072 | 0.18 | Down | Transitional endoplasmic reticulum ATPase | VCP | 45.883 |
| P55072 | 0.622 | Down | Transitional endoplasmic reticulum ATPase | VCP | 94.114 |
| P01009 | 0.13 | Down | Alpha‐1‐antitrypsin | SERPINA1 | 71.451 |
| P02679 | 0.305 | Down | Fibrinogen gamma chain | FGG | 123.86 |
| Q93034 | 2.055 | Up | Cullin‐5 | CUL5 | 211.64 |
| P07738 | 0.593 | Down | Bisphosphoglycerate mutase | BPGM | 134.44 |
| P23526 | 13.226 | Up | Adenosylhomocysteinase | AHCY | 49.188 |
| P04406 | 0.66 | Down | Glyceraldehyde‐3‐phosphate dehydrogenase | GAPDH | 92.439 |
| P27105 | 0.51 | Down | Erythrocyte band 7 integral membrane protein | STOM | 134.73 |
| P00915 | 0.322 | Down | Carbonic anhydrase 1 | CA1 | 65.428 |
| P00915 | 0.705 | Down | Carbonic anhydrase 1 | CA1 | 147.17 |
| P00915 | 0.116 | Down | Carbonic anhydrase 1 | CA1 | 110.34 |
| P68371 | 0.547 | Down | Tubulin beta‐4B chain | TUBB4B | 167.61 |
| P28289 | 0.655 | Down | Tropomodulin‐1 | TMOD1 | 95.822 |
| P69905 | 0.717 | Down | Hemoglobin subunit alpha | HBA1 | 199.81 |
| P69905 | 3.223 | Up | Hemoglobin subunit alpha | HBA1 | 168.55 |
| P11277 | 0.748 | Down | Spectrin beta chain, erythrocytic | SPTB | 108.63 |
| P11277 | 0.47 | Down | Spectrin beta chain, erythrocytic | SPTB | 142.89 |
| P11166 | 0.387 | Down | Solute carrier family 2, facilitated glucose transporter member 1 | SLC2A1 | 136.57 |
| Q8IZP2 | 0.627 | Down | Putative protein FAM10A4 | ST13P4 | 127.36 |
| Q99436 | 0.099 | Down | Proteasome subunit beta type‐7 | PSMB7 | 103.88 |
| Q99436 | 0.17 | Down | Proteasome subunit beta type‐7 | PSMB7 | 103.88 |