KEGG   PATHWAY: tfn04142
Entry
tfn04142                    Pathway                                
Name
Lysosome - Trachypithecus francoisi (Francois's langur)
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
tfn04142  Lysosome
tfn04142

Other DBs
GO: 0005764
Organism
Trachypithecus francoisi (Francois's langur) [GN:tfn]
Gene
117089206  ATP6V0A2; V-type proton ATPase 116 kDa subunit a [KO:K02154]
117080939  TCIRG1; V-type proton ATPase 116 kDa subunit a isoform X1 [KO:K02154]
117072778  ATP6V0A4; V-type proton ATPase 116 kDa subunit a isoform X1 [KO:K02154]
117066958  ATP6V0A1; V-type proton ATPase 116 kDa subunit a isoform X1 [KO:K02154]
117079117  ATP6V0D2; V-type proton ATPase subunit d 2 [KO:K02146]
117087949  ATP6V0D1; V-type proton ATPase subunit d 1 isoform X1 [KO:K02146]
117078738  ATP6V1H; V-type proton ATPase subunit H isoform X1 [KO:K02144]
117089163  ATP6AP1; V-type proton ATPase subunit S1 [KO:K03662]
117087227  V-type proton ATPase 16 kDa proteolipid subunit-like [KO:K02155]
117097785  ATP6V0C; V-type proton ATPase 16 kDa proteolipid subunit [KO:K02155]
117092718  ATP6V0B; V-type proton ATPase 21 kDa proteolipid subunit isoform X1 [KO:K03661]
117070657  DMXL2; dmX-like protein 2 isoform X1 [KO:K24155]
117065975  DMXL1; dmX-like protein 1 isoform X1 [KO:K24155]
117099104  WDR7; WD repeat-containing protein 7 isoform X1 [KO:K24738]
117097028  NCOA7; nuclear receptor coactivator 7 isoform X1 [KO:K25442]
117068853  CTSA; lysosomal protective protein isoform X1 [KO:K13289] [EC:3.4.16.5]
117063489  CTSB; cathepsin B isoform X1 [KO:K01363] [EC:3.4.22.1]
117081489  CTSC; dipeptidyl peptidase 1 isoform X1 [KO:K01275] [EC:3.4.14.1]
117081391  CTSD; cathepsin D [KO:K01379] [EC:3.4.23.5]
117075558  CTSE; cathepsin E isoform X1 [KO:K01382] [EC:3.4.23.34]
117080563  CTSF; LOW QUALITY PROTEIN: cathepsin F [KO:K01373] [EC:3.4.22.41]
117069889  CTSG; cathepsin G [KO:K01319] [EC:3.4.21.20]
117070311  CTSH; pro-cathepsin H isoform X1 [KO:K01366] [EC:3.4.22.16]
117075082  CTSK; cathepsin K isoform X1 [KO:K01371] [EC:3.4.22.38]
117098393  CTSL; cathepsin L1 [KO:K01365] [EC:3.4.22.15]
117082371  LOW QUALITY PROTEIN: cathepsin L1-like [KO:K01365] [EC:3.4.22.15]
117086071  CTSO; cathepsin O [KO:K01374] [EC:3.4.22.42]
117075084  CTSS; cathepsin S isoform X1 [KO:K01368] [EC:3.4.22.27]
117098294  CTSV; cathepsin L2 [KO:K01375] [EC:3.4.22.43]
117081639  CTSW; cathepsin W [KO:K08569] [EC:3.4.22.-]
117069005  CTSZ; cathepsin Z isoform X1 [KO:K08568] [EC:3.4.18.1]
117091625  napsin-A-like isoform X1 [KO:K08565] [EC:3.4.23.-]
117091626  napsin-A [KO:K08565] [EC:3.4.23.-]
117071517  LGMN; legumain [KO:K01369] [EC:3.4.22.34]
117081025  TPP1; tripeptidyl-peptidase 1 [KO:K01279] [EC:3.4.14.9]
117085768  GLA; alpha-galactosidase A isoform X1 [KO:K01189] [EC:3.2.1.22]
117084314  GLB1; LOW QUALITY PROTEIN: beta-galactosidase [KO:K12309] [EC:3.2.1.23]
117066796  GAA; lysosomal alpha-glucosidase isoform X1 [KO:K12316] [EC:3.2.1.20]
117074616  GBA; lysosomal acid glucosylceramidase isoform X1 [KO:K01201] [EC:3.2.1.45]
117085018  IDUA; alpha-L-iduronidase isoform X1 [KO:K01217] [EC:3.2.1.76]
117096393  NAGA; alpha-N-acetylgalactosaminidase [KO:K01204] [EC:3.2.1.49]
117066951  NAGLU; alpha-N-acetylglucosaminidase isoform X1 [KO:K01205] [EC:3.2.1.50]
117071576  GALC; galactocerebrosidase [KO:K01202] [EC:3.2.1.46]
117072917  GUSB; beta-glucuronidase isoform X1 [KO:K01195] [EC:3.2.1.31]
117072918  beta-glucuronidase-like isoform X1 [KO:K01195] [EC:3.2.1.31]
117097340  FUCA2; plasma alpha-L-fucosidase isoform X1 [KO:K01206] [EC:3.2.1.51]
117093129  FUCA1; tissue alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]
117070403  HEXA; beta-hexosaminidase subunit alpha isoform X1 [KO:K12373] [EC:3.2.1.52]
117065263  HEXB; beta-hexosaminidase subunit beta [KO:K12373] [EC:3.2.1.52]
117085716  MANBA; LOW QUALITY PROTEIN: beta-mannosidase [KO:K01192] [EC:3.2.1.25]
117075666  MAN2B1; lysosomal alpha-mannosidase isoform X1 [KO:K12311] [EC:3.2.1.24]
117086969  NEU1; sialidase-1 isoform X1 [KO:K01186] [EC:3.2.1.18]
117073069  SPAM1; hyaluronidase PH-20 [KO:K01197] [EC:3.2.1.35]
117073109  hyaluronidase-4-like isoform X1 [KO:K01197] [EC:3.2.1.35]
117073115  hyaluronidase-4 [KO:K01197] [EC:3.2.1.35]
117081845  HYAL1; hyaluronidase-1 isoform X1 [KO:K01197] [EC:3.2.1.35]
117081891  HYAL3; hyaluronidase-3 isoform X1 [KO:K01197] [EC:3.2.1.35]
117081976  HYAL2; hyaluronidase-2 [KO:K01197] [EC:3.2.1.35]
117096245  ARSA; arylsulfatase A isoform X1 [KO:K01134] [EC:3.1.6.8]
117065308  ARSB; arylsulfatase B [KO:K01135] [EC:3.1.6.12]
117067376  ARSG; arylsulfatase G isoform X1 [KO:K12381] [EC:3.1.6.-]
117088216  GALNS; N-acetylgalactosamine-6-sulfatase isoform X1 [KO:K01132] [EC:3.1.6.4]
117089812  GNS; N-acetylglucosamine-6-sulfatase [KO:K01137] [EC:3.1.6.14]
117078229  IDS; LOW QUALITY PROTEIN: iduronate 2-sulfatase [KO:K01136] [EC:3.1.6.13]
117066800  SGSH; N-sulphoglucosamine sulphohydrolase isoform X1 [KO:K01565] [EC:3.10.1.1]
117086234  LIPA; lysosomal acid lipase/cholesteryl ester hydrolase [KO:K01052] [EC:3.1.1.13]
117088480  PLA2G15; group XV phospholipase A2 isoform X1 [KO:K06129] [EC:3.1.1.5]
117092166  DNASE2B; deoxyribonuclease-2-beta isoform X1 [KO:K01158] [EC:3.1.22.1]
117076672  DNASE2; deoxyribonuclease-2-alpha [KO:K01158] [EC:3.1.22.1]
117080147  ACP2; lysosomal acid phosphatase isoform X1 [KO:K14410] [EC:3.1.3.2]
117074715  ACP5; tartrate-resistant acid phosphatase type 5 [KO:K14379] [EC:3.1.3.2]
117081499  SMPD1; sphingomyelin phosphodiesterase isoform X1 [KO:K12350] [EC:3.1.4.12]
117092723  ASAH1; acid ceramidase [KO:K12348] [EC:3.5.1.23]
117086163  AGA; N(4)-(beta-N-acetylglucosaminyl)-L-asparaginase isoform X1 [KO:K01444] [EC:3.5.1.26]
117082531  PSAP; prosaposin isoform X1 [KO:K12382]
117085092  PSAPL1; proactivator polypeptide-like 1 [KO:K12382]
117065619  GM2A; ganglioside GM2 activator [KO:K12383]
117092805  PPT1; palmitoyl-protein thioesterase 1 isoform X1 [KO:K01074] [EC:3.1.2.22]
117086991  PPT2; lysosomal thioesterase PPT2 isoform X1 [KO:K01074] [EC:3.1.2.22]
117078258  LAMP2; lysosome-associated membrane glycoprotein 2 isoform X1 [KO:K06528]
117063473  LAMP1; lysosome-associated membrane glycoprotein 1 [KO:K06528]
117083794  LAMP3; lysosome-associated membrane glycoprotein 3 isoform X1 [KO:K06562]
117067765  CD68; macrosialin [KO:K06501]
117089972  CD63; CD63 antigen [KO:K06497]
117085454  SCARB2; lysosome membrane protein 2 [KO:K12384]
117064055  NPC1; NPC intracellular cholesterol transporter 1 isoform X1 [KO:K12385]
117069337  NPC2; NPC intracellular cholesterol transporter 2 isoform X1 [KO:K13443]
117067912  CTNS; cystinosin isoform X1 [KO:K12386]
117087454  SLC17A5; sialin isoform X1 [KO:K12301]
117093726  sialin-like [KO:K12301]
117094527  SLC11A1; natural resistance-associated macrophage protein 1 isoform X1 [KO:K12347]
117090124  SLC11A2; natural resistance-associated macrophage protein 2 isoform X1 [KO:K21398]
117078747  LAPTM4B; lysosomal-associated transmembrane protein 4B [KO:K12387]
117062681  LAPTM4A; lysosomal-associated transmembrane protein 4A [KO:K12387]
117092986  LAPTM5; lysosomal-associated transmembrane protein 5 [KO:K12387]
117099123  ABCA2; LOW QUALITY PROTEIN: ATP-binding cassette sub-family A member 2 [KO:K05642]
117089230  ABCB9; ATP-binding cassette sub-family B member 9 [KO:K05656]
117097192  CD164; sialomucin core protein 24 isoform X1 [KO:K06546]
117093471  ENTPD4; ectonucleoside triphosphate diphosphohydrolase 4 isoform X1 [KO:K12305] [EC:3.6.1.6]
117075729  SORT1; sortilin isoform X1 [KO:K12388]
117087591  CLN3; battenin isoform X1 [KO:K12389]
117063669  CLN5; ceroid-lipofuscinosis neuronal protein 5 [KO:K12390]
117085896  MFSD8; major facilitator superfamily domain-containing protein 8 isoform X1 [KO:K12307]
117095880  HGSNAT; LOW QUALITY PROTEIN: heparan-alpha-glucosaminide N-acetyltransferase [KO:K10532] [EC:2.3.1.78]
117083171  SUMF1; formylglycine-generating enzyme isoform X1 [KO:K13444] [EC:1.8.3.7]
117089538  GNPTAB; N-acetylglucosamine-1-phosphotransferase subunits alpha/beta isoform X1 [KO:K08239] [EC:2.7.8.17]
117097863  GNPTG; N-acetylglucosamine-1-phosphotransferase subunit gamma [KO:K10087]
117097690  NAGPA; N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase isoform X1 [KO:K01125] [EC:3.1.4.45]
117096923  IGF2R; cation-independent mannose-6-phosphate receptor isoform X1 [KO:K06564]
117090783  M6PR; cation-dependent mannose-6-phosphate receptor isoform X1 [KO:K10089]
117098987  CLTA; clathrin light chain A isoform X1 [KO:K04644]
117065361  CLTB; clathrin light chain B isoform X1 [KO:K04645]
117096050  CLTCL1; clathrin heavy chain 2 isoform X1 [KO:K04646]
117067323  CLTC; clathrin heavy chain 1 isoform X1 [KO:K04646]
117069947  AP1G2; AP-1 complex subunit gamma-like 2 isoform X1 [KO:K12391]
117088007  AP1G1; AP-1 complex subunit gamma-1 isoform X1 [KO:K12391]
117096151  AP1B1; AP-1 complex subunit beta-1 isoform X1 [KO:K12392]
117075196  AP1M2; AP-1 complex subunit mu-2 [KO:K12393]
117076366  AP1M1; AP-1 complex subunit mu-1 [KO:K12393]
117072533  AP1S1; AP-1 complex subunit sigma-1A [KO:K12394]
117077256  AP1S2; AP-1 complex subunit sigma-2 isoform X1 [KO:K12394]
117094457  AP1S3; AP-1 complex subunit sigma-3 isoform X1 [KO:K12395]
117073986  AP3D1; AP-3 complex subunit delta-1 isoform X1 [KO:K12396]
117071219  AP3B2; AP-3 complex subunit beta-2 isoform X1 [KO:K12397]
117065299  AP3B1; AP-3 complex subunit beta-1 isoform X1 [KO:K12397]
117082717  AP3M1; AP-3 complex subunit mu-1 isoform X1 [KO:K12398]
117095549  AP3M2; AP-3 complex subunit mu-2 isoform X1 [KO:K12398]
117070224  AP3S2; AP-3 complex subunit sigma-2 isoform X1 [KO:K12399]
117065994  AP3S1; AP-3 complex subunit sigma-1 isoform X1 [KO:K12399]
117070664  AP4E1; AP-4 complex subunit epsilon-1 [KO:K12400]
117075759  AP4B1; AP-4 complex subunit beta-1 isoform X1 [KO:K12401]
117072086  AP4M1; AP-4 complex subunit mu-1 [KO:K12402]
117069852  AP4S1; AP-4 complex subunit sigma-1 isoform X1 [KO:K12403]
117097364  AP-4 complex subunit sigma-1-like [KO:K12403]
117087496  GGA2; ADP-ribosylation factor-binding protein GGA2 isoform X1 [KO:K12404]
117070121  GGA1; ADP-ribosylation factor-binding protein GGA1 [KO:K12404]
117066672  GGA3; ADP-ribosylation factor-binding protein GGA3 [KO:K12404]
117076111  MCOLN1; mucolipin-1 isoform X1 [KO:K04992]
117097425  LITAFD; LITAF domain-containing protein [KO:K19363]
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
tfn00511  Other glycan degradation
tfn00531  Glycosaminoglycan degradation
tfn04130  SNARE interactions in vesicular transport
tfn04140  Autophagy - animal
tfn04144  Endocytosis
KO pathway
ko04142   
LinkDB

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