Table I. ERE complex proteins with significant changes after a 24-h E2 stimulation.
Proteins marked in bold were identified by both Experiments 1 and 2. TR, transcription regulation; B, binding; SDR, short-chain dehydrogenases/reductases; TRAP, thyroid hormone receptor-associated protein; UBX, domain present in ubiquitin-regulatory proteins; —, not applicable.
| Swiss-Prot accession no. | Protein name | Mean ± S.D. | No. of peptides | Molecular mass | Comments | Refs. |
|---|---|---|---|---|---|---|
| Da | ||||||
| 1. Only ERα-related | ||||||
| Q9NXB9 | Elongation of very long chain fatty acids protein 2 | 0.957 ± 0.054 | 2 | 34,803 | TR | 25 |
| Q96JQ0 | Protocadherin-16 precursor | 1.333 | 1 | 346,712 | TR | 26 |
| Q14980 | Nuclear mitotic apparatus protein 1 | 0.599 | 1 | 239,214 | TR | 27 |
| P19012 | Keratin, type I cytoskeletal 15 | 1.006 ± 0.113 | 19 | 49,365 | TR | 27 |
| P08727 | Keratin, type I cytoskeletal 19 | 1.102 ± 0.237 | 155 | 44,065 | TR | 25 |
| 2. Only c-Myc-related | ||||||
| P62081 | 40 S ribosomal protein S7 | 1.200 ± 0.116 | 4 | 22,113 | TR | 26 |
| P08195 | 4F2 cell surface antigen heavy chain | 0.905 ± 0.002 | 2 | 58,023 | TR | 28 |
| Q9Y3U8 | 60 S ribosomal protein L36 | 0.786 ± 0.001 | 2 | 12,303 | TR | 29 |
| P62424 | 60 S ribosomal protein L7a | 1.085 ± 0.096 | 3 | 30,148 | TR | 30 |
| P68133 | Actin, α skeletal muscle | 1.100 ± 0.054 | 14 | 42,366 | TR | 26 |
| Q9HDC9 | Adipocyte plasma membrane-associated protein | 1.037 ± 0.120 | 8 | 46,622 | TR | 31 |
| P07355 | Annexin A2 | 1.095 ± 0.301 | 4 | 38,808 | TR | 28 |
| P24539 | ATP synthase B chain | 1.498 | 1 | 28,947 | TR | 29 |
| P25705 | ATP synthase subunit α | 1.103 ± 0.101 | 21 | 59,828 | TR | 28 |
| P06576 | ATP synthase subunit β | 1.099 ± 0.234 | 34 | 56,525 | TR | 29 |
| P53618 | Coatomer subunit β | 0.906 ± 0.054 | 4 | 108,214 | TR | 26 |
| Q9Y394 | Dehydrogenase/reductase SDR family member 7 precursor | 1.658 | 1 | 38,673 | TR | 31 |
| P54886 | Δ1-Pyrroline-5-carboxylate synthetase | 1.064 ± 0.151 | 3 | 87,989 | B | 32 |
| Q16531 | DNA damage-binding protein 1 | 1.224 ± 0.002 | 2 | 128,142 | TR | 28 |
| P39656 | Dolichyl-diphosphooligosaccharide-protein glycosyltransferase 48-kDa subunit precursor | 0.961 ± 0.125 | 8 | 48,893 | TR | 28 |
| P50402 | Emerin | 1.204 ± 0.137 | 4 | 29,033 | TR | 33 |
| P15311 | Ezrin (p81) | 1.350 ± 0.029 | 2 | 69,484 | TR | 28 |
| Q06787 | Fragile X mental retardation 1 protein | 0.941 ± 0.006 | 2 | 71,473 | TR | 34 |
| P62826 | Androgen receptor-associated protein 24 | 1.259 ± 0.063 | 2 | 24,579 | TR | 28 |
| P61978 | Transformation up-regulated nuclear protein | 1.095 ± 0.193 | 6 | 51,230 | TR | 32 |
| P52272 | Heterogeneous nuclear ribonucleoprotein M | 1.067 ± 0.060 | 5 | 77,749 | TR | 31 |
| P05783 | Keratin, type I cytoskeletal 18 | 1.100 ± 0.390 | 449 | 48,029 | TR | 28 |
| Q96AG4 | Leucine-rich repeat-containing protein 59 | 1.257 ± 0.337 | 5 | 35,308 | TR | 35 |
| Q08722 | Leukocyte surface antigen CD47 precursor | 1.957 | 1 | 35,590 | TR | 28 |
| Q13724 | Mannosyl-oligosaccharide glucosidase | 0.980 ± 0.039 | 2 | 92,032 | B | 32 |
| P67812 | Microsomal signal peptidase 18-kDa subunit | 2.597 ± 0.298 | 2 | 20,612 | TR | 31 |
| Q8TCT9 | Signal peptide peptidase | 1.197 ± 0.153 | 2 | 41,747 | TR | 31 |
| Q9Y6C9 | Mitochondrial carrier homolog 2 | 0.671 ± 0.072 | 2 | 33,936 | TR | 29 |
| P35580 | Myosin heavy chain 10 | 1.333 ± 0.444 | 4 | 229,824 | TR | 28 |
| O94832 | Myosin-Id | 0.579 | 1 | 116,927 | TR | 29 |
| Q9Y2X3 | Nucleolar protein NOP5 | 1.632 ± 0.000 | 2 | 60,054 | TR | 36 |
| Q14160 | Protein LAP4 | 1.957 | 1 | 175,794 | TR | 29 |
| Q86UE4 | Astrocyte elevated gene 1 protein | 1.022 ± 0.046 | 4 | 63,856 | TR | 28 |
| P46940 | Ras GTPase-activating-like protein IQGAP1 | 0.994 ± 0.138 | 3 | 189,761 | TR | 31 |
| P61026 | Ras-related protein Rab-10 | 0.945 ± 0.148 | 7 | 22,755 | TR | 31 |
| Q14257 | E6-binding protein | 0.964 ± 0.017 | 3 | 36,911 | TR | 28 |
| Q9NW13 | RNA-binding protein 28 | 1.425 | 1 | 86,198 | TR | 31 |
| P05023 | Sodium/potassium-transporting ATPase α-1 chain precursor | 1.100 ± 0.130 | 17 | 114,135 | TR | 35 |
| P50991 | T-complex protein 1 subunit δ | 1.164 ± 0.124 | 2 | 58,401 | TR | 32 |
| Q5JTV8 | Torsin-1A-interacting protein 1 | 0.876 ± 0.002 | 2 | 66,379 | TR | 31 |
| Q15363 | Transmembrane emp24 domain-containing protein 2 precursor | 1.672 | 1 | 22,860 | TR | 28 |
| P40939 | Trifunctional enzyme subunit α | 1.288 ± 0.407 | 8 | 83,688 | TR | 31 |
| Q9NYL9 | Tropomodulin-3 (ubiquitous tropomodulin) | 1.837 | 1 | 39,741 | TR | 37 |
| Q9NZB2 | UPF0318 protein FAM120A | 0.927 ± 0.083 | 3 | 117,711 | TR | 28 |
| Q96A26 | E2-induced gene 5 protein | 2.3 ± 0.1 | 2 | 17,559 | TR | 29 |
| Da | ||||||
| Q8WY22 | Cervical cancer 1 proto-oncogene-binding protein KG19 | 1.393 | 1 | 27,932 | TR | 38 |
| Q15005 | Signal peptidase complex subunit 2 | 1.315 ± 0.034 | 4 | 25,272 | TR | 28 |
| 3. Both ERα− and c-Myc-related | ||||||
| P63104 | 14-3-3 protein ζ/δ (protein kinase C inhibitor protein 1) | 1.372 | 1 | 27,899 | TR | 26, 28 |
| P09110 | 3-Ketoacyl-CoA thiolase | 1.148 ± 0.018 | 2 | 44,834 | TR | 28, 39 |
| P62277 | 40 S ribosomal protein S13 | 1.042 ± 0.105 | 4 | 17,212 | TR | 26, 33 |
| P62263 | 40 S ribosomal protein S14 | 1.180 ± 0.003 | 2 | 16,434 | TR | 28, 40 |
| P62249 | 40 S ribosomal protein S16 | 1.211 ± 0.005 | 3 | 16,549 | TR | 33, 41 |
| P08708 | 40 S ribosomal protein S17 | 1.326 | 1 | 15,597 | TR | 26, 33 |
| P62269 | 40 S ribosomal protein S18 | 1.083 ± 0.137 | 2 | 17,708 | TR | 26, 30 |
| P61247 | 40 S ribosomal protein S3a | 1.038 ± 0.052 | 9 | 30,154 | TR | 26 |
| P62753 | Phosphoprotein NP33 | 1.174 ± 0.001 | 2 | 28,834 | TR | 26, 42 |
| P62241 | 40 S ribosomal protein S8 | 1.271 ± 0.067 | 2 | 24,475 | TR | 26, 28 |
| P10809 | 60-kDa heat shock protein | 1.041 ± 0.108 | 8 | 61,187 | TR | 26, 43 |
| P62913 | 60 S ribosomal protein L11 | 1.292 ± 0.248 | 3 | 20,468 | TR | 26, 44 |
| P26373 | Breast basic conserved protein 1 | 1.020 ± 0.049 | 2 | 24,304 | TR | 26, 33 |
| P46776 | 60 S ribosomal protein L27a | 1.089 ± 0.082 | 2 | 16,665 | TR | 26, 45 |
| Q02878 | TAX-responsive enhancer element-binding protein 107 | 0.898 ± 0.001 | 2 | 32,765 | TR | 26, 33 |
| P18124 | 60 S ribosomal protein L7 | 1.062 ± 0.001 | 2 | 29,264 | TR | 26, 28 |
| P32969 | 60 S ribosomal protein L9 | 1.173 ± 0.138 | 4 | 21,964 | TR | 26, 33 |
| P60709 | Actin, cytoplasmic 1 (β-actin) | 1.087 ± 0.107 | 24 | 42,052 | B, TR | 26, 46 |
| P05141 | ADP/ATP translocase 2 | 1.020 ± 0.221 | 5 | 33,102 | TR | 26, 28 |
| P12956 | Thyroid-lupus autoantigen (CTC box-binding factor 75-kDa subunit) | 1.066 ± 0.298 | 4 | 70,084 | B, TR | 33, 40 |
| Q9NYF8 | Bcl-2-associated transcription factor 1 (Btf) | 1.177 ± 0.002 | 2 | 106,173 | TR | 23, 28 |
| P27824 | Calnexin precursor | 1.187 ± 0.101 | 5 | 67,982 | TR | 26, 28 |
| O14976 | Cyclin G-associated kinase | 1.212 ± 0.153 | 2 | 144,583 | TR | 26, 33 |
| P04844 | Dolichyl-diphosphooligosaccharide | 1.045 ± 0.132 | 18 | 69,355 | B, TR | 26, 32 |
| P49411 | Elongation factor Tu | 1.181 ± 0.491 | 6 | 49,852 | TR | 26, 28 |
| P14625 | Endoplasmin precursor | 1.342 | 1 | 92,696 | TR | 33, 40 |
| Q92616 | GCN1-like protein 1 | 0.929 ± 0.049 | 4 | 294,953 | TR | 26, 35 |
| P04406 | Glyceraldehyde-3-phosphate dehydrogenase | 1.113 ± 0.258 | 3 | 36,201 | TR | 28, 40 |
| P11142 | Heat shock cognate 71-kDa protein | 1.029 ± 0.253 | 5 | 71,082 | TR, B | 42, 47 |
| P07900 | Heat shock protein HSP 90-α | 1.088 ± 0.087 | 2 | 85,006 | TR, B | 28, 48 |
| P08238 | Heat shock protein HSP 90-β | 1.029 ± 0.004 | 2 | 83,554 | TR, B | 28, 49 |
| P09651 | Heterogeneous nuclear ribonucleoprotein A1 | 1.069 ± 0.171 | 5 | 38,936 | TR | 40, 45 |
| P51991 | Heterogeneous nuclear ribonucleoprotein A3 | 1.008 ± 0.197 | 5 | 39,799 | TR | 35, 40 |
| P14866 | Heterogeneous nuclear ribonucleoprotein L | 0.998 ± 0.124 | 3 | 60,719 | TR | 29, 40 |
| O60506 | Heterogeneous nuclear ribonucleoprotein Q | 1.374 | 1 | 69,788 | TR | 26, 28 |
| P07910 | Heterogeneous nuclear ribonucleoproteins C1/C2 | 1.096 ± 0.183 | 19 | 33,707 | TR | 35, 40 |
| P16401 | Histone H1.5 | 1.047 ± 0.160 | 8 | 22,566 | TR | 29, 40 |
| Q71UI9 | Histone H2AV | 1.067 ± 0.110 | 33 | 13,501 | TR | 26, 28 |
| P62807 | Histone H2B type 1-C/E/F/G/I | 1.170 ± 0.458 | 58 | 13,811 | TR | 33, 41 |
| Q16836 | Hydroxyacyl-coenzyme A dehydrogenase | 1.331 ± 0.178 | 2 | 34,313 | TR | 26, 28 |
| P08779 | Keratin, type I cytoskeletal 16 | 1.099 ± 0.379 | 25 | 51,578 | TR | 26 |
| Q96G23 | Tumor metastasis suppressor gene 1 protein | 0.971 ± 0.001 | 2 | 44,961 | TR | 25, 35 |
| P02545 | Lamin-A/C | 1.084 ± 0.144 | 9 | 74,380 | TR | 26, 42 |
| P20700 | Lamin-B1 | 1.204 ± 0.221 | 10 | 66,653 | TR | 26, 28 |
| Q16891 | Proliferation-inducing gene 4 protein | 1.033 ± 0.115 | 4 | 84,026 | TR | 26, 28 |
| P60660 | Myosin light polypeptide 6 | 1.272 ± 0.001 | 2 | 17,090 | TR | 26, 50 |
| P35579 | Myosin-9 | 0.966 ± 0.193 | 17 | 227,646 | TR | 31, 40 |
| O43795 | Myosin-Ib | 0.955 ± 0.108 | 3 | 132,928 | TR | 26, 51 |
| Q15758 | Neutral amino acid transporter B(0) | 1.098 ± 0.113 | 3 | 57,018 | TR | 26, 28 |
| P06748 | Nucleophosmin (NPM) (nucleolar phosphoprotein B23) | 0.996 ± 0.019 | 4 | 32,726 | TR | 40, 43 |
| P26599 | Polypyrimidine tract-binding protein 1 | 1.020 ± 0.296 | 6 | 57,357 | TR | 28, 39 |
| Q6P2Q9 | Pre-mRNA processing-splicing factor 8 | 1.030 ± 0.092 | 4 | 274,738 | B | 40, 51 |
| P35232 | Prohibitin | 1.012 ± 0.147 | 7 | 29,843 | TR, B | 52, 53 |
| Da | ||||||
| Q99623 | Prohibitin-2 (repressor of estrogen receptor activity) | 1.144 ± 0.197 | 7 | 33,276 | TR, B | 33, 40 |
| Q15084 | Protein-disulfide isomerase A6 precursor | 1.243 ± 0.027 | 2 | 48,490 | TR | 26, 28 |
| Q9BSJ8 | Protein FAM62A | 0.982 ± 0.040 | 6 | 123,293 | TR | 26, 40 |
| O43143 | Putative pre-mRNA splicing factor ATP-dependent RNA helicase DHX15 | 1.558 | 1 | 91,673 | TR | 26, 32 |
| Q15050 | Ribosome biogenesis regulatory protein homolog | 1.322 | 1 | 41,225 | TR | 28, 54 |
| Q9H3N1 | Thioredoxin domain-containing protein 1 precursor | 1.235 ± 0.222 | 2 | 32,170 | TR | 26, 35 |
| Q13263 | Transcription intermediary factor 1-β (nuclear corepressor KAP-1) | 1.083 ± 0.094 | 2 | 90,261 | TR, B | 32, 40 |
| Q9UNL2 | Translocon-associated protein subunit γ (TRAP-γ) | 1.151 ± 0.001 | 2 | 21,067 | TR | 25, 35 |
| P68363 | Tubulin α ubiquitous chain | 0.950 ± 0.271 | 103 | 50,804 | B | 28, 55 |
| P07437 | Tubulin β chain | 1.015 ± 0.195 | 38 | 50,095 | TR, B | 26, 55 |
| P68371 | Tubulin β-2C chain | 1.021 ± 0.186 | 39 | 50,255 | TR | 26 |
| Q9P0L0 | Vesicle-associated membrane protein-associated protein A | 0.921 ± 0.002 | 2 | 28,103 | TR | 26, 33 |
| O95292 | Vesicle-associated membrane protein-associated protein B/C | 0.921 ± 0.002 | 2 | 27,439 | TR | 26, 31 |
| O75396 | Vesicle-trafficking protein SEC22b | 0.897 ± 0.022 | 2 | 24,896 | TR | 26, 31 |
| P21796 | Voltage-dependent anion-selective channel protein 1 | 1.168 ± 0.379 | 26 | 30,868 | TR | 26, 35 |
| Q9Y277 | Voltage-dependent anion-selective channel protein 3 | 1.045 ± 0.043 | 3 | 30,981 | TR | 26, 28 |
| P68104 | Elongation factor 1-α 1 | 1.159 ± 0.065 | 3 | 50,451 | TR | 26, 28 |
| O94972 | Tripartite motif-containing protein 37 | 1.882 | 1 | 109,491 | TR | |
| P22626 | Heterogeneous nuclear ribonucleoproteins A2/B1 | 1.032 ± 0.173 | 16 | 37,464 | TR | 33, 40 |
| P33778 | Histone H2B type 1-B | 1.177 ± 0.455 | 58 | 13,942 | TR | 29, 40 |
| P84243 | Histone H3.3 | 1.393 ± 1.100 | 28 | 15,376 | TR | 28, 40 |
| O75367 | Core histone macro-H2A.1 | 1.2 ± 0.4 | 8 | 39,764 | TR | 26, 33 |
| 4. Others | ||||||
| Q15008 | Breast cancer-associated protein SGA-113 m | 0.985 ± 0.112 | 6 | 45,787 | — | |
| Q16352 | α-Internexin (α-Inx) | 0.366 ± 0.068 | 6 | 55,528 | — | |
| P00403 | Cytochrome c oxidase subunit 2 | 0.983 ± 0.095 | 4 | 25,719 | — | |
| P15924 | Desmoplakin (DP) | 1.008 ± 0.061 | 5 | 334,021 | — | 56 |
| Q14315 | Filamin-C | 2.728 | 1 | 293,344 | — | |
| P20671 | Histone H2A type 1 | 1.063 ± 0.200 | 47 | 14,099 | — | |
| Q71DI3 | Histone H3.2 | 0.970 ± 0.201 | 31 | 15,436 | — | |
| P62805 | Histone H4 | 1.004 ± 0.196 | 162 | 11,360 | — | 57 |
| P04264 | Keratin, type II cytoskeletal 1 | 0.987 ± 0.086 | 157 | 66,149 | — | 58 |
| P02538 | Keratin, type II cytoskeletal 6A | 1.215 ± 0.346 | 19 | 60,293 | — | 59 |
| P05787 | Keratin, type II cytoskeletal 8 | 1.072 ± 0.447 | 565 | 53,671 | — | 60 |
| Q7Z406 | Myosin-14 | 1.014 ± 0.208 | 4 | 228,889 | — | |
| P16435 | NADPH-cytochrome P450 reductase | 0.913 ± 0.000 | 2 | 77,097 | — | |
| Q9H0U4 | Ras-related protein Rab-1B | 1.149 ± 0.112 | 5 | 22,328 | — | |
| P62834 | Ras-related protein Rap-1A precursor | 0.956 ± 0.085 | 3 | 21,316 | — | 61 |
| Q96HR9 | Receptor expression-enhancing protein 6 | 1.004 ± 0.178 | 4 | 20,891 | — | 62 |
| O94901 | Sad1/unc-84 protein-like 1 | 1.180 ± 0.045 | 2 | 90,806 | — | |
| P04350 | Tubulin β-4 chain | 0.943 ± 0.153 | 17 | 50,010 | — | 63 |
| Q96CS3 | UBX domain-containing protein 8 | 0.998 ± 0.035 | 3 | 52,933 | — | 64 |