Table I. List of potential novel lysosomal proteins.
Proteins from the Lys-734 list without any subcellular localization annotation are given. The functions are as follows: I, immune function; M, metabolism; Misc, miscellaneous; MT, membrane trafficking; R/S, receptors and signaling; T, transporters, channels, and ion pumps; U, unknown; TM, number of transmembrane domains; SpI, spectral index; NA, not applicable (protein identified in MbL+ exclusively). The lysosomal localization of MFSD1 has been shown during the course of this work (66).
| Gene name | Description | Accession no. | TM | Function | SpI | No. of peptides | Coverage |
|---|---|---|---|---|---|---|---|
| Abca6 | Abca6, similar to ATP-binding cassette, subfamily A (ABC1), member 6 | IPI00762951 | 13 | T | 0.76 | 6 | 4.61 |
| Acp1 | Acp1, isoform 1 of low molecular weight phosphotyrosine protein phosphatase | IPI00206664 | 0 | R/S | NA | 2 | 12.66 |
| Afmid | LOC688283, similar to kynurenine formamidase | IPI00882532 | 0 | M | NA | 7 | 27.45 |
| Ahcy | Ahcy, adenosylhomocysteinase | IPI00476295 | 0 | M | 0.60 | 16 | 38.66 |
| Akr1c12l1 | RGD1559604, similar to protein RAKd | IPI00557070 | 0 | M | NA | 4 | 13.31 |
| Akr1c13 | LOC364773, 17β-hydroxysteroid dehydrogenase | IPI00387641 | 0 | M | NA | 5 | 19,38 |
| Aox3 | Aox3, aldehyde oxidase 1 | IPI00205560 | 0 | M | 0.88 | 26 | 25.11 |
| Ap5z1 | Kiaa0415, hypothetical protein LOC641386 | IPI00363750 | 0 | MT | NA | 8 | 11.03 |
| Atp11c-ps1 | 128-kDa protein | IPI00370178 | 8 | T | 0.63 | 25 | 27.32 |
| C10orf32 | RGD1311783, hypothetical protein | IPI00371685 | 0 | U | NA | 10 | 59.06 |
| C16orf62 | LOC361635, UPF0505 protein C16orf62 homolog | IPI00569226 | 0 | U | 0.80 | 5 | 5.61 |
| C17orf59 | LOC497934, uncharacterized protein C17orf59 homolog | IPI00188598 | 0 | U | 0.87 | 11 | 22.16 |
| C1galt1 | C1galt1, glycoprotein-N-acetylgalactosamine 3β-galactosyltransferase 1 | IPI00200858 | 1 | M | NA | 7 | 19.83 |
| C1galt1c1 | C1galt1c1, C1GALT1-specific chaperone 1 | IPI00197034 | 1 | Misc | NA | 3 | 11.08 |
| C2orf72 | 18-kDa protein | IPI00188569 | 0 | U | NA | 4 | 36.9 |
| C6orf58 | RGD1311933, hypothetical protein | IPI00358842 | 0 | U | 0.95 | 9 | 29.97 |
| C9orf91 | RGD1304595, hypothetical protein LOC298104 | IPI00357901 | 2 | U | NA | 7 | 22.51 |
| Ca2 | Car2, carbonic anhydrase 2 | IPI00230787 | 0 | M | NA | 2 | 8.85 |
| Cacfd1 | RGD1311501, hypothetical protein LOC296599 | IPI00363948 | 3 | T | NA | 2 | 14.62 |
| Ccdc22 | Ccdc22, similar to coiled-coil domain containing 22 | IPI00362580 | 0 | U | NA | 11 | 23,6 |
| Ccdc93 | Ccdc93, coiled-coil domain-containing protein 93 | IPI00371846 | 0 | U | NA | 10 | 18.28 |
| Cd302 | Cd302, CD302 antigen | IPI00372762 | 1 | R/S | NA | 4 | 15.79 |
| Clec4f | Clec4f, C-type lectin domain family 4 member F | IPI00193212 | 1 | R/S | 0.98 | 20 | 33.64 |
| Clec4g | Clec4g, similar to C-type lectin domain family 4, member g | IPI00764324 | 1 | U | NA | 4 | 14.65 |
| Cnp | Cnp, 2′,3′-cyclic-nucleotide 3′-phosphodiesterase | IPI00199394 | 0 | M | 0.78 | 5 | 13.81 |
| Commd10 | Commd10, COMM domain containing 10 | IPI00365123 | 0 | U | NA | 8 | 36.63 |
| Commd2 | Commd2, COMM domain containing 2 | IPI00372217 | 0 | U | NA | 2 | 8.54 |
| Commd3 | Commd3, COMM domain-containing protein 3 | IPI00400613 | 0 | U | NA | 6 | 36.92 |
| Commd7 | Commd7, COMM domain containing 7 | IPI00373166 | 0 | Misc | NA | 5 | 31 |
| Commd9 | Commd9, COMM domain containing 9 | IPI00210812 | 0 | U | NA | 8 | 58.59 |
| Cpne5 | Cpne5, copine V | IPI00360489 | 0 | MT | 0.60 | 2 | 3.04 |
| Crip2 | Crip2, cysteine-rich protein 2 | IPI00200352 | 0 | Misc | NA | 3 | 33.65 |
| Csad | Csad, cysteine sulfinic acid decarboxylase | IPI00214394 | 0 | M | 0.74 | 12 | 32.86 |
| Csnk2a1 | Csnk2a1, casein kinase II subunit α | IPI00192586 | 0 | R/S | NA | 4 | 10.23 |
| Dak | Dak, dihydroxyacetone kinase | IPI00372498 | 0 | M | 0.81 | 22 | 46.71 |
| Dnajc13 | Dnajc13, 108-kDa protein | IPI00366703 | 0 | U | NA | 3 | 5.59 |
| Dnajc13 | Dnajc13, DnaJ (Hsp40) homolog, subfamily C, member 13 | IPI00870706 | 0 | U | NA | 6 | 4.14 |
| Dnajc5 | Dnajc5, DnaJ homolog subfamily C member 5 | IPI00210881 | 0 | Misc | 0.63 | 6 | 31.31 |
| Enpp4 | Enpp4, ectonucleotide pyrophosphatase/phosphodiesterase 4 | IPI00371761 | 1 | M | 0.89 | 5 | 11.07 |
| Eprs | Eprs, LRRGT00050 | IPI00476855 | 0 | M | NA | 4 | 2.76 |
| Fth1 | Fth1, ferritin heavy chain | IPI00777061 | 0 | Misc | 0.70 | 14 | 59.34 |
| Gna11 | Gna11, guanine nucleotide-binding protein α-11 subunit | IPI00200437 | 0 | R/S | 0.86 | 13 | 36.21 |
| Gna13 | Gna13, Gα13 | IPI00422053 | 0 | R/S | 0.79 | 13 | 34.22 |
| Gna14 | Gna14, guanine nucleotide-binding protein, α14 | IPI00360645 | 0 | R/S | 0.86 | 3 | 12.68 |
| Gnai3 | Gnai3, guanine nucleotide-binding protein G(k) subunit α | IPI00231726 | 0 | R/S | 0.88 | 12 | 43.22 |
| Gpr155 | Gpr155 G protein-coupled receptor 155 | IPI00365274 | 17 | R/S | 0.89 | 9 | 14.29 |
| Grhpr | Grhpr, Grhpr protein | IPI00767591 | 0 | M | 0.87 | 7 | 24.18 |
| Haao | Haao 3-hydroxyanthranilate 3,4-dioxygenase | IPI00339188 | 0 | M | NA | 9 | 22.03 |
| Iah1 | Iah1, isoamyl acetate-hydrolyzing esterase 1 homolog | IPI00421610 | 0 | M | NA | 5 | 16.47 |
| Igtp | Igtp Ac2-233 | IPI00369234 | 0 | M | NA | 5 | 5.73 |
| Itfg3 | Itfg3 protein ITFG3 | IPI00372350 | 1 | U | NA | 5 | 11.78 |
| Jak1 | Jak1, similar to tyrosine-protein kinase JAK1 | IPI00212981 | 0 | R/S | 0.75 | 3 | 2.84 |
| Kctd12 | Kctd12, similar to potassium channel tetramerization domain-containing protein 12 | IPI00767085 | 0 | Misc | NA | 3 | 9.77 |
| Kxd1 | LOC498606, UPF0459 protein C19orf50 homolog | IPI00197953 | 0 | U | NA | 7 | 28.25 |
| Lgals5 | Lgals5, galectin-5 | IPI00231663 | 0 | Misc | 0.94 | 8 | 55.17 |
| Loh12cr1 | Loh12cr1, loss of heterozygosity, 12, chromosomal region 1 homolog | IPI00189639 | 0 | U | 0.94 | 22 | 80.51 |
| Mef2bnb | LOC684626, similar to K11B4.2 | IPI00364627 | 0 | U | 0.97 | 6 | 38.66 |
| Mfsd1 | Mfsd1, similar to major facilitator superfamily domain-containing 1 | IPI00373212 | 11 | T | NA | 6 | 18.75 |
| Mic1 | RGD1311805, similar to RIKEN cDNA 2400010D15 | IPI00363472 | 0 | U | NA | 25 | 41.55 |
| Mios | RGD1308432, similar to missing oocyte CG7074-PA | IPI00199953 | 0 | U | NA | 7 | 8.11 |
| Mon1b | Mon1b, MON1 homolog b | IPI00359673 | 0 | MT | 0.93 | 23 | 53.86 |
| Mpeg1 | Mpeg1, macrophage-expressed gene 1 protein | IPI00204417 | 1 | U | 0.80 | 18 | 39.92 |
| Myadm | Myadm, myeloid-associated differentiation marker | IPI00339007 | 8 | U | 0.76 | 2 | 8.49 |
| Napg | LOC682827, 35-kDa protein | IPI00367524 | 0 | MT | 0.92 | 28 | 52.24 |
| Oplah | Oplah, 5-oxoprolinase | IPI00326436 | 0 | M | NA | 5 | 5.05 |
| Pah | Pah, phenylalanine-4-hydroxylase | IPI00193258 | 0 | M | 0.66 | 11 | 36.64 |
| Pbld | Pbld, phenazine biosynthesis-like domain-containing protein | IPI00200041 | 0 | M | NA | 6 | 32.64 |
| Pebp1 | Pebp1, phosphatidylethanolamine-binding protein 1 | IPI00230937 | 0 | Misc | 0.68 | 5 | 43.85 |
| Pik3ca | Pik3ca, similar to phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit α isoform | IPI00955176 | 0 | R/S | 0.64 | 2 | 2.06 |
| Pk | Similar to pyruvate kinase 3 | IPI00561880 | 0 | M | NA | 18 | 35.78 |
| Pklr | Pklr, isoform R-type of pyruvate kinase isozymes R/L | IPI00202549 | 0 | M | 0.86 | 18 | 43.55 |
| Pla2g2a | Pla2g2a, phospholipase A2, membrane-associated | IPI00205248 | 1 | M | NA | 3 | 28.08 |
| Ppa1 | Ppa1, similar to pyrophosphatase | IPI00371957 | 0 | M | NA | 3 | 11.63 |
| Prkag1 | Prkag1, 5′-AMP-activated protein kinase subunit γ-1 | IPI00196645 | 0 | R/S | 0.72 | 5 | 20 |
| Rbp1 | Rbp1, retinol-binding protein 1 | IPI00231825 | 0 | T | NA | 5 | 29.63 |
| RGD1308461 | RGD1308461, similar to CG5149-PA | IPI00359821 | 0 | U | NA | 9 | 24.35 |
| Sec14l4 | Sec14l4, SEC14-like 4 | IPI00204634 | 0 | Misc | 0.66 | 11 | 31.07 |
| Slc38a7 | Slc38a7, putative sodium-coupled neutral amino acid transporter 7 | IPI00421684 | 11 | T | NA | 7 | 10.8 |
| Slc46a3 | Slc46a3, solute carrier family 46 member 3 | IPI00364398 | 11 | T | NA | 2 | 5.86 |
| Slco2b1 | Slco2b1, solute carrier organic anion transporter family member 2B1 | IPI00230858 | 12 | T | 0.75 | 3 | 5.56 |
| Sord | Sord, sorbitol dehydrogenase | IPI00760137 | 0 | M | 0.68 | 16 | 45.1 |
| Stard10 | Stard10, START domain containing 10 | IPI00555188 | 0 | U | NA | 5 | 16.21 |
| Tagln3 | Tagln3, transgelin-3 | IPI00210532 | 0 | U | NA | 5 | 11.47 |
| Tgm2 | Tgm2, transglutaminase 2, C polypeptide | IPI00205135 | 0 | M | NA | 6 | 11.81 |
| Tm9sf4 | Tm9sf4, transmembrane 9 superfamily member 4 | IPI00373155 | 9 | Misc | NA | 9 | 13.84 |
| Tmem104 | Tmem104, similar to CG5262-PA | IPI00778760 | 11 | T | NA | 6 | 11.29 |
| Tmem144 | Tmem144, transmembrane protein 144 | IPI00373219 | 10 | U | 0.95 | 5 | 23.85 |
| Tmem175 | Tmem175, transmembrane protein 175 | IPI00211068 | 9 | U | NA | 5 | 18.44 |
| UBB | LOC679594;LOC682397 similar to polyubiquitin | IPI00763565 | 0 | M | 0.88 | 3 | 38.96 |
| Ubl3 | Ubl3, ubiquitin-like protein 3 | IPI00358637 | 0 | U | NA | 6 | 47.01 |
| Uroc1 | Uroc1, similar to urocanase domain containing 1 | IPI00388707 | 0 | M | NA | 8 | 14.35 |
| UST4r | UST4r, putative integral membrane transport protein | IPI00202688 | 7 | T | 0.89 | 6 | 10.33 |
| Vsig4 | Vsig4, V-set and immunoglobulin domain-containing 4 | IPI00372986 | 1 | R/S | NA | 5 | 17.19 |
| Wdr81 | Wdr81, similar to α2-plasmin inhibitor | IPI00370309 | 0 | U | 0.65 | 6 | 3.58 |
| Wdr91 | Wdr91, Wdr91 protein | IPI00373314 | 0 | U | NA | 4 | 7.62 |