Table 3. Proteomic profile of nuclear and ER protein distribution in sorted populations of reticulocytes and extruded nuclei.
| Nuclei | Reticulocytes | ||||
| Accession | Description | Total peptides | Unique peptides | Total peptides | Unique peptides |
| P11021 | 78 kDa glucose-regulated protein | 96 | 30 | 48 | 24 |
| P46013 | Antigen KI-67 | 262 | 132 | 14 | 12 |
| O00148 | ATP-dependent RNA helicase DDX39A | 57 | 19 | 18 | 9 |
| Q8IWX8 | Calcium homeostasis endoplasmic reticulum protein | 3 | 3 | ||
| P27824 | Calnexin | 45 | 15 | 8 | 5 |
| P27797 | Calreticulin | 95 | 16 | 27 | 13 |
| P11387 | DNA topoisomerase 1 | 129 | 33 | 2 | 2 |
| P78527 | DNA-dependent protein kinase catalytic subunit | 194 | 113 | 55 | 47 |
| O60762 | Dolichol-phosphate mannosyltransferase | 21 | 15 | ||
| P39656 | Dolichyl-diphosphooligosaccharide–protein glycosyltransferase 48 kDa subunit | 20 | 11 | 4 | 4 |
| P04843 | Dolichyl-diphosphooligosaccharide–protein glycosyltransferase subunit 1 | 56 | 26 | 9 | 7 |
| P49792 | E3 SUMO-protein ligase RanBP2 | 61 | 47 | ||
| Q9NZ08 | Endoplasmic reticulum aminopeptidase 1 | 4 | 4 | ||
| P30040 | Endoplasmic reticulum resident protein 29 | 20 | 8 | 3 | 1 |
| Q9BS26 | Endoplasmic reticulum resident protein 44 | 16 | 9 | 6 | 3 |
| Q969X5 | Endoplasmic reticulum-Golgi intermediate compartment protein 1 | 3 | 3 | ||
| P14625 | Endoplasmin | 33 | 22 | 12 | 9 |
| Q9P0I2 | ER membrane protein complex subunit 3 | 3 | 3 | ||
| O75396 | ER-Golgi SNARE of 24 kDa | 40 | 11 | 8 | 5 |
| Q9Y5B9 | FACT complex subunit SPT16 | 62 | 30 | 4 | 4 |
| A8K318 | Glucosidase 2 subunit beta | 23 | 13 | 6 | 6 |
| P09601 | Heme oxygenase 1 | 16 | 9 | ||
| Q9BXL5 | Hemogen | 119 | 21 | 42 | 16 |
| Q5SSJ5 | Heterochromatin protein 1-binding protein 3 | 40 | 18 | 1 | 1 |
| P09429 | High mobility group protein B1 | 160 | 16 | 14 | 5 |
| P26583 | High mobility group protein B2 | 188 | 17 | 23 | 10 |
| Q02539 | Histone H1.1 | 144 | 10 | 18 | 4 |
| P04908 | Histone H2A type 1-B/E | 182 | 6 | 14 | 4 |
| P68431 | Histone H3.1 | 117 | 12 | 22 | 5 |
| P62805 | Histone H4 | 266 | 14 | 33 | 10 |
| Q5TCI8 | Lamin A/C | 212 | 43 | 40 | 19 |
| P42166 | Lamina-associated polypeptide 2, isoform alpha | 148 | 34 | 11 | 5 |
| P42167 | Lamina-associated polypeptide 2, isoforms beta/gamma | 137 | 22 | 13 | 7 |
| Q14739 | Lamin-B receptor | 53 | 17 | 2 | 2 |
| P20700 | Lamin-B1 | 162 | 43 | 22 | 13 |
| Q03252 | Lamin-B2 | 103 | 35 | 5 | 4 |
| P43243 | Matrin-3 | 28 | 13 | 5 | 2 |
| Q8N4V1 | Membrane magnesium transporter 1 | 2 | 1 | ||
| Q9UNW1 | Multiple inositol polyphosphate phosphatase 1 | 25 | 14 | 5 | 5 |
| Q8NFW8 | N-acylneuraminate cytidylyltransferase | 111 | 24 | 8 | 4 |
| Q14697 | Neutral alpha-glucosidase AB | 88 | 32 | 22 | 14 |
| Q8N1F7 | Nuclear pore complex protein Nup93 | 33 | 18 | 6 | 4 |
| Q8TEM1 | Nuclear pore membrane glycoprotein 210 | 60 | 33 | 2 | 2 |
| Q9NR30 | Nucleolar RNA helicase 2 | 39 | 20 | ||
| P19338 | Nucleolin | 99 | 32 | 18 | 15 |
| Q5SRE5 | Nucleoporin NUP188 homolog | 15 | 13 | 1 | 1 |
| P12270 | Nucleoprotein TPR | 105 | 68 | 17 | 12 |
| P02545 | Prelamin-A/C | 284 | 56 | 54 | 26 |
| P07237 | Protein disulfide-isomerase | 74 | 22 | 27 | 16 |
| P13667 | Protein disulfide-isomerase A4 | 7 | 7 | ||
| B7Z254 | Protein disulfide-isomerase A6 | 24 | 12 | 7 | 5 |
| P49257 | Protein ERGIC-53 | 3 | 3 | 3 | 2 |
| Q5JYR6 | Ribophorin II | 31 | 10 | 5 | 3 |
| P55072 | Transitional endoplasmic reticulum ATPase | 57 | 25 | 133 | 50 |
| Q9NYU2 | UDP-glucose:glycoprotein glucosyltransferase 1 | 75 | 45 | 28 | 19 |
| O95292 | Vesicle-associated membrane protein-associated protein B/C | 11 | 3 | 2 | 1 |
Sorted populations of reticulocytes and extruded nuclei were fractionated by 1D SDS-PAGE and subjected to Nano LC mass spectrometry. An abridged list containing key nuclear proteins and ER proteins of interest is shown. Total peptide column is the total number of peptides (and therefore an indication of a particular protein’s abundance) detected in the population, whilst the unique peptide column indicates the number of unique peptides detected. To assess differences between nuclei and reticulocyte populations the total peptide number should be used.