KEGG   PATHWAY: dnm04142
Entry
dnm04142                    Pathway                                
Name
Lysosome - Dasypus novemcinctus (nine-banded armadillo)
Description
Lysosomes are membrane-delimited organelles in animal cells serving as the cell's main digestive compartment to which all sorts of macromolecules are delivered for degradation. They contain more than 40 hydrolases in an acidic environment (pH of about 5). After synthesis in the ER, lysosomal enzymes are decorated with mannose-6-phosphate residues, which are recognized by mannose-6-phosphate receptors in the trans-Golgi network. They are packaged into clathrin-coated vesicles and are transported to late endosomes. Substances for digestion are acquired by the lysosomes via a series of processes including endocytosis, phagocytosis, and autophagy.
Class
Cellular Processes; Transport and catabolism
Pathway map
dnm04142  Lysosome
dnm04142

Other DBs
GO: 0005764
Organism
Dasypus novemcinctus (nine-banded armadillo) [GN:dnm]
Gene
101410701  NAGLU; LOW QUALITY PROTEIN: alpha-N-acetylglucosaminidase [KO:K01205] [EC:3.2.1.50]
101410905  DMXL2; LOW QUALITY PROTEIN: dmX-like protein 2 [KO:K24155]
101410949  AP3M2; AP-3 complex subunit mu-2 [KO:K12398]
101410981  NAPSA; napsin-A [KO:K08565] [EC:3.4.23.-]
101411436  [KO:K12387]
101411535  CD68; macrosialin isoform X1 [KO:K06501]
101411932  CTSH; pro-cathepsin H [KO:K01366] [EC:3.4.22.16]
101412074  [KO:K01052] [EC:3.1.1.13]
101412186  CTSC; dipeptidyl peptidase 1 isoform X1 [KO:K01275] [EC:3.4.14.1]
101412227  NAGA; LOW QUALITY PROTEIN: alpha-N-acetylgalactosaminidase [KO:K01204] [EC:3.2.1.49]
101412419  SLC11A1; natural resistance-associated macrophage protein 1 [KO:K12347]
101413115  TCIRG1; V-type proton ATPase 116 kDa subunit a [KO:K02154]
101413642  [KO:K01052] [EC:3.1.1.13]
101413876  WDR7; LOW QUALITY PROTEIN: WD repeat-containing protein 7 [KO:K24738]
101413888  GLB1; LOW QUALITY PROTEIN: beta-galactosidase [KO:K12309] [EC:3.2.1.23]
101413935  ATP6V0A2; V-type proton ATPase 116 kDa subunit a [KO:K02154]
101414413  HEXB; beta-hexosaminidase subunit beta [KO:K12373] [EC:3.2.1.52]
101414541  LAMP3; lysosome-associated membrane glycoprotein 3 [KO:K06562]
101414683  AP4B1; AP-4 complex subunit beta-1 isoform X1 [KO:K12401]
101414689  CTSF; cathepsin F [KO:K01373] [EC:3.4.22.41]
101414830  LAMP2; lysosome-associated membrane glycoprotein 2 [KO:K06528]
101414897  CD164; sialomucin core protein 24 isoform X1 [KO:K06546]
101414920  [KO:K01052] [EC:3.1.1.13]
101415736  [KO:K01052] [EC:3.1.1.13]
101415791  PSAP; prosaposin isoform X1 [KO:K12382]
101416022  CLTCL1; clathrin heavy chain 2 [KO:K04646]
101416081  GGA2; ADP-ribosylation factor-binding protein GGA2 [KO:K12404]
101416639  NCOA7; nuclear receptor coactivator 7 isoform X1 [KO:K25442]
101416765  PPT1; palmitoyl-protein thioesterase 1 [KO:K01074] [EC:3.1.2.22]
101416849  [KO:K01197] [EC:3.2.1.35]
101416868  GGA3; ADP-ribosylation factor-binding protein GGA3 [KO:K12404]
101417001  NAGPA; N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [KO:K01125] [EC:3.1.4.45]
101417051  [KO:K13289] [EC:3.4.16.5]
101417299  [KO:K01197] [EC:3.2.1.35]
101417864  GALC; galactocerebrosidase [KO:K01202] [EC:3.2.1.46]
101418274  M6PR; cation-dependent mannose-6-phosphate receptor [KO:K10089]
101418692  FUCA2; LOW QUALITY PROTEIN: plasma alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]
101418806  [KO:K06546]
101419040  ARSG; arylsulfatase G isoform X6 [KO:K12381] [EC:3.1.6.-]
101419436  CTSL; cathepsin L1 [KO:K01365] [EC:3.4.22.15]
101419597  DNASE2B; deoxyribonuclease-2-beta isoform X1 [KO:K01158] [EC:3.1.22.1]
101419932  LITAF; lipopolysaccharide-induced tumor necrosis factor-alpha factor [KO:K19363]
101420044  CTSO; cathepsin O [KO:K01374] [EC:3.4.22.42]
101420589  HYAL2; hyaluronidase-2 [KO:K01197] [EC:3.2.1.35]
101420743  NEU1; sialidase-1 [KO:K01186] [EC:3.2.1.18]
101420788  CLTA; clathrin light chain A isoform X1 [KO:K04644]
101421051  NPC2; epididymal secretory protein E1 [KO:K13443]
101421259  [KO:K01197] [EC:3.2.1.35]
101421333  HYAL1; hyaluronidase-1 [KO:K01197] [EC:3.2.1.35]
101421768  HYAL3; hyaluronidase-3 isoform X1 [KO:K01197] [EC:3.2.1.35]
101421947  [KO:K12382]
101422139  [KO:K01197] [EC:3.2.1.35]
101422184  CTSB; cathepsin B isoform X2 [KO:K01363] [EC:3.4.22.1]
101422748  [KO:K12396]
101422774  SUMF1; sulfatase-modifying factor 1 [KO:K13444] [EC:1.8.3.7]
101422966  AP3B2; AP-3 complex subunit beta-2 [KO:K12397]
101423014  [KO:K01197] [EC:3.2.1.35]
101423287  LGMN; legumain [KO:K01369] [EC:3.4.22.34]
101423452  [KO:K01197] [EC:3.2.1.35]
101423477  CTSD; cathepsin D [KO:K01379] [EC:3.4.23.5]
101423813  LAPTM4A; lysosomal-associated transmembrane protein 4A [KO:K12387]
101423888  [KO:K01197] [EC:3.2.1.35]
101423890  CTSW; cathepsin W isoform X1 [KO:K08569] [EC:3.4.22.-]
101424226  GNS; N-acetylglucosamine-6-sulfatase [KO:K01137] [EC:3.1.6.14]
101424265  AP1S3; AP-1 complex subunit sigma-3 [KO:K12395]
101424531  [KO:K12311] [EC:3.2.1.24]
101424611  [KO:K01052] [EC:3.1.1.13]
101424679  GBA; glucosylceramidase [KO:K01201] [EC:3.2.1.45]
101424961  [KO:K12305] [EC:3.6.1.6]
101425086  GALNS; N-acetylgalactosamine-6-sulfatase [KO:K01132] [EC:3.1.6.4]
101425667  CLN3; battenin isoform X1 [KO:K12389]
101426400  PLA2G15; group XV phospholipase A2 isoform X1 [KO:K06129] [EC:3.1.1.5]
101426440  GLA; alpha-galactosidase A [KO:K01189] [EC:3.2.1.22]
101426620  MFSD8; major facilitator superfamily domain-containing protein 8 [KO:K12307]
101426784  IDS; iduronate 2-sulfatase [KO:K01136] [EC:3.1.6.13]
101426855  MCOLN1; mucolipin-1 isoform X2 [KO:K04992]
101427578  MANBA; LOW QUALITY PROTEIN: beta-mannosidase [KO:K01192] [EC:3.2.1.25]
101428239  CTSE; cathepsin E isoform X1 [KO:K01382] [EC:3.4.23.34]
101428874  ACP2; lysosomal acid phosphatase isoform X1 [KO:K14410] [EC:3.1.3.2]
101429282  [KO:K01365] [EC:3.4.22.15]
101429403  TPP1; tripeptidyl-peptidase 1 isoform X1 [KO:K01279] [EC:3.4.14.9]
101429572  AP4E1; AP-4 complex subunit epsilon-1 isoform X1 [KO:K12400]
101430023  AP3M1; AP-3 complex subunit mu-1 [KO:K12398]
101430039  ACP5; tartrate-resistant acid phosphatase type 5 [KO:K14379] [EC:3.1.3.2]
101430426  AP1M2; LOW QUALITY PROTEIN: AP-1 complex subunit mu-2 [KO:K12393]
101430626  [KO:K12393]
101430782  ATP6V0D2; V-type proton ATPase subunit d 2 isoform X1 [KO:K02146]
101431452  IGF2R; cation-independent mannose-6-phosphate receptor isoform X1 [KO:K06564]
101431803  SLC17A5; sialin [KO:K12301]
101431853  NPC1; Niemann-Pick C1 protein [KO:K12385]
101432039  [KO:K12399]
101432376  AGA; N(4)-(beta-N-acetylglucosaminyl)-L-asparaginase [KO:K01444] [EC:3.5.1.26]
101432458  GNPTG; N-acetylglucosamine-1-phosphotransferase subunit gamma isoform X1 [KO:K10087]
101432832  AP1G2; LOW QUALITY PROTEIN: AP-1 complex subunit gamma-like 2 [KO:K12391]
101433099  CTSA; lysosomal protective protein [KO:K13289] [EC:3.4.16.5]
101433636  [KO:K04645]
101433892  HEXA; beta-hexosaminidase subunit alpha isoform X1 [KO:K12373] [EC:3.2.1.52]
101433919  CLN5; ceroid-lipofuscinosis neuronal protein 5 [KO:K12390]
101434284  TLDC1; TLD domain-containing protein 1 isoform X1 [KO:K27947]
101434365  [KO:K12403]
101434732  DMXL1; LOW QUALITY PROTEIN: dmX-like protein 1 [KO:K24155]
101434800  AP3S1; AP-3 complex subunit sigma-1 [KO:K12399]
101435750  ATP6V0A4; V-type proton ATPase 116 kDa subunit a [KO:K02154]
101436108  [KO:K12396]
101436442  CTSZ; LOW QUALITY PROTEIN: cathepsin Z [KO:K08568] [EC:3.4.18.1]
101436537  [KO:K12399]
101437071  GGA1; ADP-ribosylation factor-binding protein GGA1 [KO:K12404]
101437099  AP1G1; AP-1 complex subunit gamma-1 [KO:K12391]
101437187  ATP6V0B; V-type proton ATPase 21 kDa proteolipid subunit [KO:K03661]
101437413  CTNS; cystinosin [KO:K12386]
101437929  ASAH1; acid ceramidase [KO:K12348] [EC:3.5.1.23]
101437933  PPT2; lysosomal thioesterase PPT2 [KO:K01074] [EC:3.1.2.22]
101438237  ARSA; arylsulfatase A isoform X1 [KO:K01134] [EC:3.1.6.8]
101438336  LAPTM5; lysosomal-associated transmembrane protein 5 [KO:K12387]
101438391  SCARB2; lysosome membrane protein 2 [KO:K12384]
101438854  AP1S2; AP-1 complex subunit sigma-2 isoform X1 [KO:K12394]
101439037  ATP6V1H; V-type proton ATPase subunit H isoform X1 [KO:K02144]
101439191  ARSB; arylsulfatase B [KO:K01135] [EC:3.1.6.12]
101439635  DNASE2; deoxyribonuclease-2-alpha [KO:K01158] [EC:3.1.22.1]
101439719  ATP6V0D1; V-type proton ATPase subunit d 1 [KO:K02146]
101440017  [KO:K10089]
101440362  [KO:K05656]
101441026  CTSK; cathepsin K [KO:K01371] [EC:3.4.22.38]
101441160  AP4M1; AP-4 complex subunit mu-1 [KO:K12402]
101441178  LAPTM4B; lysosomal-associated transmembrane protein 4B [KO:K12387]
101441416  ABCB9; ATP-binding cassette sub-family B member 9 isoform X2 [KO:K05656]
101441455  CTSS; LOW QUALITY PROTEIN: cathepsin S [KO:K01368] [EC:3.4.22.27]
101441774  [KO:K01052] [EC:3.1.1.13]
101442162  ATP6V0C; V-type proton ATPase 16 kDa proteolipid subunit [KO:K02155]
101442197  [KO:K12311] [EC:3.2.1.24]
101442385  SMPD1; sphingomyelin phosphodiesterase [KO:K12350] [EC:3.1.4.12]
101442444  GUSB; beta-glucuronidase [KO:K01195] [EC:3.2.1.31]
101442638  [KO:K12311] [EC:3.2.1.24]
101442663  CD63; CD63 antigen [KO:K06497]
101443079  HGSNAT; heparan-alpha-glucosaminide N-acetyltransferase [KO:K10532] [EC:2.3.1.78]
101443121  ATP6AP1; V-type proton ATPase subunit S1 [KO:K03662]
101443261  ABCA2; LOW QUALITY PROTEIN: ATP-binding cassette sub-family A member 2 [KO:K05642]
101443735  AP4S1; AP-4 complex subunit sigma-1 [KO:K12403]
101443773  SGSH; N-sulphoglucosamine sulphohydrolase isoform X2 [KO:K01565] [EC:3.10.1.1]
101443941  CLTC; clathrin heavy chain 1 [KO:K04646]
101444159  [KO:K12387]
101444490  LAMP1; lysosome-associated membrane glycoprotein 1 isoform X1 [KO:K06528]
101444732  AP1B1; AP-1 complex subunit beta-1 isoform X1 [KO:K12392]
101445062  FUCA1; tissue alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]
101445073  AP1S1; AP-1 complex subunit sigma-1A [KO:K12394]
101445136  GAA; LOW QUALITY PROTEIN: lysosomal alpha-glucosidase [KO:K12316] [EC:3.2.1.20]
101445719  GM2A; ganglioside GM2 activator [KO:K12383]
101445787  [KO:K01052] [EC:3.1.1.13]
101445799  GNPTAB; N-acetylglucosamine-1-phosphotransferase subunits alpha/beta isoform X1 [KO:K08239] [EC:2.7.8.17]
101445869  SLC11A2; natural resistance-associated macrophage protein 2 isoform X2 [KO:K21398]
101445972  SORT1; LOW QUALITY PROTEIN: sortilin [KO:K12388]
101446650  [KO:K12311] [EC:3.2.1.24]
101446774  ATP6V0A1; V-type proton ATPase 116 kDa subunit a isoform X5 [KO:K02154]
101447531  IDUA; alpha-L-iduronidase isoform X3 [KO:K01217] [EC:3.2.1.76]
101447843  AP3B1; LOW QUALITY PROTEIN: AP-3 complex subunit beta-1 [KO:K12397]
105744603  [KO:K01319] [EC:3.4.21.20]
105745665  [KO:K06546]
105746320  [KO:K19363]
105746411  [KO:K12401]
Compound
C00002  ATP
C00008  ADP
C00159  D-Mannose
C00275  D-Mannose 6-phosphate
Reference
PMID:12628346
  Authors
Eskelinen EL, Tanaka Y, Saftig P
  Title
At the acidic edge: emerging functions for lysosomal membrane proteins.
  Journal
Trends Cell Biol 13:137-45 (2003)
DOI:10.1016/S0962-8924(03)00005-9
Reference
PMID:1883197
  Authors
Neufeld EF
  Title
Lysosomal storage diseases.
  Journal
Annu Rev Biochem 60:257-80 (1991)
DOI:10.1146/annurev.bi.60.070191.001353
Reference
PMID:2943218
  Authors
von Figura K, Hasilik A
  Title
Lysosomal enzymes and their receptors.
  Journal
Annu Rev Biochem 55:167-93 (1986)
DOI:10.1146/annurev.bi.55.070186.001123
Reference
PMID:15987739
  Authors
Janvier K, Bonifacino JS
  Title
Role of the endocytic machinery in the sorting of lysosome-associated membrane proteins.
  Journal
Mol Biol Cell 16:4231-42 (2005)
DOI:10.1091/mbc.E05-03-0213
Reference
PMID:18635948
  Authors
Vergarajauregui S, Puertollano R
  Title
Mucolipidosis type IV: the importance of functional lysosomes for efficient autophagy.
  Journal
Autophagy 4:832-4 (2008)
DOI:10.4161/auto.6567
Reference
PMID:34249946
  Authors
Jaskolka MC, Winkley SR, Kane PM
  Title
RAVE and Rabconnectin-3 Complexes as Signal Dependent Regulators of Organelle Acidification.
  Journal
Front Cell Dev Biol 9:698190 (2021)
DOI:10.3389/fcell.2021.698190
Reference
PMID:34646033
  Authors
Majdoul S, Compton AA
  Title
Lessons in self-defence: inhibition of virus entry by intrinsic immunity.
  Journal
Nat Rev Immunol 10.1038/s41577-021-00626-8 (2021)
DOI:10.1038/s41577-021-00626-8
Related
pathway
dnm00511  Other glycan degradation
dnm00531  Glycosaminoglycan degradation
dnm04130  SNARE interactions in vesicular transport
dnm04140  Autophagy - animal
dnm04144  Endocytosis
KO pathway
ko04142   

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