KEGG   PATHWAY: myd04142
Entry
myd04142                    Pathway                                
Name
Lysosome - Myotis davidii (David's myotis)
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
myd04142  Lysosome
myd04142

Other DBs
GO: 0005764
Organism
Myotis davidii (David's myotis) [GN:myd]
Gene
102751294  MCOLN1; mucolipin 1 [KO:K04992]
102751351  ATP6V0D1; ATPase H+ transporting V0 subunit d1 [KO:K02146]
102751516  AP3M2; adaptor related protein complex 3 mu 2 subunit [KO:K12398]
102751727  DNASE2; deoxyribonuclease 2, lysosomal [KO:K01158] [EC:3.1.22.1]
102751743  SLC17A5; solute carrier family 17 member 5 [KO:K12301]
102751832  GAA; glucosidase alpha, acid [KO:K12316] [EC:3.2.1.20]
102752051  DNASE2B; deoxyribonuclease 2 beta [KO:K01158] [EC:3.1.22.1]
102752061  [KO:K01365] [EC:3.4.22.15]
102752240  NAGPA; N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [KO:K01125] [EC:3.1.4.45]
102752567  CTSD; cathepsin D [KO:K01379] [EC:3.4.23.5]
102752608  ATP6V0A1; ATPase H+ transporting V0 subunit a1 [KO:K02154]
102753110  CD63; CD63 molecule [KO:K06497]
102753130  ATP6V0C; ATPase H+ transporting V0 subunit c [KO:K02155]
102753183  DMXL2; Dmx like 2 [KO:K24155]
102753251  SGSH; N-sulfoglucosamine sulfohydrolase [KO:K01565] [EC:3.10.1.1]
102753313  HGSNAT; heparan-alpha-glucosaminide N-acetyltransferase [KO:K10532] [EC:2.3.1.78]
102753330  CLTC; clathrin heavy chain [KO:K04646]
102753425  AP1M1; adaptor related protein complex 1 mu 1 subunit [KO:K12393]
102753556  HEXB; hexosaminidase subunit beta [KO:K12373] [EC:3.2.1.52]
102753719  CTSE; cathepsin E [KO:K01382] [EC:3.4.23.34]
102754122  NAGA; alpha-N-acetylgalactosaminidase [KO:K01204] [EC:3.2.1.49]
102754423  AP3S2; adaptor related protein complex 3 sigma 2 subunit [KO:K12399]
102754556  HYAL3; hyaluronoglucosaminidase 3 [KO:K01197] [EC:3.2.1.35]
102754682  AP4E1; adaptor related protein complex 4 epsilon 1 subunit [KO:K12400]
102754763  CTSH; cathepsin H [KO:K01366] [EC:3.4.22.16]
102754833  HYAL2; hyaluronoglucosaminidase 2 [KO:K01197] [EC:3.2.1.35]
102754881  FUCA1; fucosidase, alpha-L- 1, tissue [KO:K01206] [EC:3.2.1.51]
102755358  CTNS; cystinosin, lysosomal cystine transporter [KO:K12386]
102755574  MAN2B1; mannosidase alpha class 2B member 1 [KO:K12311] [EC:3.2.1.24]
102755742  GGA3; golgi associated, gamma adaptin ear containing, ARF binding protein 3 [KO:K12404]
102755876  ACP2; acid phosphatase 2, lysosomal [KO:K14410] [EC:3.1.3.2]
102756156  HEXA; hexosaminidase subunit alpha [KO:K12373] [EC:3.2.1.52]
102756561  GLB1; galactosidase beta 1 [KO:K12309] [EC:3.2.1.23]
102756806  SCARB2; scavenger receptor class B member 2 [KO:K12384]
102756829  IGF2R; insulin like growth factor 2 receptor [KO:K06564]
102756953  CD68; CD68 molecule [KO:K06501]
102757220  [KO:K01365] [EC:3.4.22.15]
102757234  SLC11A1; solute carrier family 11 member 1 [KO:K12347]
102757306  ATP6V0A4; ATPase H+ transporting V0 subunit a4 [KO:K02154]
102757480  AP3B1; adaptor related protein complex 3 beta 1 subunit [KO:K12397]
102757991  GLA; galactosidase alpha [KO:K01189] [EC:3.2.1.22]
102758054  ARSB; arylsulfatase B [KO:K01135] [EC:3.1.6.12]
102758128  AGA; aspartylglucosaminidase [KO:K01444] [EC:3.5.1.26]
102758178  AP3M1; adaptor related protein complex 3 mu 1 subunit [KO:K12398]
102758260  AP4B1; adaptor related protein complex 4 beta 1 subunit [KO:K12401]
102758272  AP4S1; adaptor related protein complex 4 sigma 1 subunit [KO:K12403]
102758293  CTSW; cathepsin W [KO:K08569] [EC:3.4.22.-]
102758434  GBA; glucosylceramidase beta [KO:K01201] [EC:3.2.1.45]
102758571  ATP6V1H; ATPase H+ transporting V1 subunit H [KO:K02144]
102758625  AP1G2; adaptor related protein complex 1 gamma 2 subunit [KO:K12391]
102758783  AP3S1; adaptor related protein complex 3 sigma 1 subunit [KO:K12399]
102759025  WDR7; WD repeat domain 7 [KO:K24738]
102759076  CLTA; clathrin light chain A [KO:K04644]
102759236  GGA2; golgi associated, gamma adaptin ear containing, ARF binding protein 2 [KO:K12404]
102759397  LAMP1; lysosomal associated membrane protein 1 [KO:K06528]
102759456  [KO:K14379] [EC:3.1.3.2]
102759580  GALNS; galactosamine (N-acetyl)-6-sulfatase [KO:K01132] [EC:3.1.6.4]
102759741  NPC2; NPC intracellular cholesterol transporter 2 [KO:K13443]
102759868  SORT1; sortilin 1 [KO:K12388]
102760555  LAMP2; lysosomal associated membrane protein 2 [KO:K06528]
102760613  CLN3; CLN3, battenin [KO:K12389]
102760673  LAPTM4B; lysosomal protein transmembrane 4 beta [KO:K12387]
102760878  LIPA; lipase A, lysosomal acid type [KO:K01052] [EC:3.1.1.13]
102760897  CD164; CD164 molecule [KO:K06546]
102761267  AP1G1; adaptor related protein complex 1 gamma 1 subunit [KO:K12391]
102761335  SUMF1; sulfatase modifying factor 1 [KO:K13444] [EC:1.8.3.7]
102761519  TCIRG1; T-cell immune regulator 1, ATPase H+ transporting V0 subunit a3 [KO:K02154]
102761828  [KO:K01363] [EC:3.4.22.1]
102761837  AP1S2; adaptor related protein complex 1 sigma 2 subunit [KO:K12394]
102761976  AP3D1; adaptor related protein complex 3 delta 1 subunit [KO:K12396]
102762561  ATP6V0A2; ATPase H+ transporting V0 subunit a2 [KO:K02154]
102762770  NAGLU; N-acetyl-alpha-glucosaminidase [KO:K01205] [EC:3.2.1.50]
102762911  AP1S3; adaptor related protein complex 1 sigma 3 subunit [KO:K12395]
102763369  ARSG; arylsulfatase G [KO:K12381] [EC:3.1.6.-]
102763399  CLTB; clathrin light chain B [KO:K04645]
102763994  TPP1; tripeptidyl peptidase 1 [KO:K01279] [EC:3.4.14.9]
102764101  [KO:K01365] [EC:3.4.22.15]
102764432  CTSC; cathepsin C [KO:K01275] [EC:3.4.14.1]
102764453  ACP5; acid phosphatase 5, tartrate resistant [KO:K14379] [EC:3.1.3.2]
102764584  ATP6V0D2; ATPase H+ transporting V0 subunit d2 [KO:K02146]
102764665  PLA2G15; phospholipase A2 group XV [KO:K06129] [EC:3.1.1.5]
102765080  GUSB; glucuronidase beta [KO:K01195] [EC:3.2.1.31]
102765427  ARSA; arylsulfatase A [KO:K01134] [EC:3.1.6.8]
102765447  GALC; galactosylceramidase [KO:K01202] [EC:3.2.1.46]
102765611  LAPTM4A; lysosomal protein transmembrane 4 alpha [KO:K12387]
102766118  CTSA; cathepsin A [KO:K13289] [EC:3.4.16.5]
102766492  LITAF; lipopolysaccharide induced TNF factor [KO:K19363]
102766549  GNPTAB; N-acetylglucosamine-1-phosphate transferase alpha and beta subunits [KO:K08239] [EC:2.7.8.17]
102766634  GNPTG; N-acetylglucosamine-1-phosphate transferase gamma subunit [KO:K10087]
102766674  CTSF; cathepsin F [KO:K01373] [EC:3.4.22.41]
102766992  GGA1; golgi associated, gamma adaptin ear containing, ARF binding protein 1 [KO:K12404]
102767071  FUCA2; fucosidase, alpha-L- 2, plasma [KO:K01206] [EC:3.2.1.51]
102767213  GM2A; GM2 ganglioside activator [KO:K12383]
102767239  ENTPD4; ectonucleoside triphosphate diphosphohydrolase 4 [KO:K12305] [EC:3.6.1.6]
102767582  PSAP; prosaposin [KO:K12382]
102768084  SMPD1; sphingomyelin phosphodiesterase 1 [KO:K12350] [EC:3.1.4.12]
102768095  PPT2; palmitoyl-protein thioesterase 2 [KO:K01074] [EC:3.1.2.22]
102768684  DMXL1; Dmx like 1 [KO:K24155]
102768736  AP1B1; adaptor related protein complex 1 beta 1 subunit [KO:K12392]
102768828  LGMN; legumain [KO:K01369] [EC:3.4.22.34]
102769031  AP1M2; adaptor related protein complex 1 mu 2 subunit [KO:K12393]
102769744  CTSO; cathepsin O [KO:K01374] [EC:3.4.22.42]
102769886  AP3B2; AP-3 complex subunit beta-2 [KO:K12397]
102770003  CTSZ; cathepsin Z [KO:K08568] [EC:3.4.18.1]
102770281  MFSD8; major facilitator superfamily domain containing 8 [KO:K12307]
102770427  MANBA; mannosidase beta [KO:K01192] [EC:3.2.1.25]
102770643  PPT1; palmitoyl-protein thioesterase 1 [KO:K01074] [EC:3.1.2.22]
102771016  CTSS; cathepsin S [KO:K01368] [EC:3.4.22.27]
102771181  [KO:K01365] [EC:3.4.22.15]
102771289  AP1S1; adaptor related protein complex 1 sigma 1 subunit [KO:K12394]
102771390  CTSB; cathepsin B [KO:K01363] [EC:3.4.22.1]
102771465  IDS; iduronate 2-sulfatase [KO:K01136] [EC:3.1.6.13]
102771486  CTSK; cathepsin K [KO:K01371] [EC:3.4.22.38]
102771532  TLDC1; TBC/LysM-associated domain containing 1 [KO:K27947]
102771606  SLC11A2; solute carrier family 11 member 2 [KO:K21398]
102771652  ABCB9; ATP binding cassette subfamily B member 9 [KO:K05656]
102771882  CLN5; ceroid-lipofuscinosis, neuronal 5 [KO:K12390]
102772512  HYAL1; hyaluronoglucosaminidase 1 [KO:K01197] [EC:3.2.1.35]
102772524  ASAH1; N-acylsphingosine amidohydrolase 1 [KO:K12348] [EC:3.5.1.23]
102772962  NAPSA; napsin A aspartic peptidase [KO:K08565] [EC:3.4.23.-]
102773128  LAPTM5; lysosomal protein transmembrane 5 [KO:K12387]
102773285  NEU1; neuraminidase 1 [KO:K01186] [EC:3.2.1.18]
102773437  AP4M1; adaptor related protein complex 4 mu 1 subunit [KO:K12402]
102773521  [KO:K01319] [EC:3.4.21.20]
102773675  NPC1; NPC intracellular cholesterol transporter 1 [KO:K12385]
102773736  HYAL4; hyaluronoglucosaminidase 4 [KO:K01197] [EC:3.2.1.35]
102773806  [KO:K01319] [EC:3.4.21.20]
102774265  NCOA7; nuclear receptor coactivator 7 [KO:K25442]
102774280  ATP6V0B; ATPase H+ transporting V0 subunit b [KO:K03661]
102774302  SPAM1; sperm adhesion molecule 1 [KO:K01197] [EC:3.2.1.35]
102774425  [KO:K02155]
102774486  LAMP3; lysosomal associated membrane protein 3 [KO:K06562]
102774590  GNS; glucosamine (N-acetyl)-6-sulfatase [KO:K01137] [EC:3.1.6.14]
102774682  M6PR; mannose-6-phosphate receptor, cation dependent [KO:K10089]
102775007  ATP6AP1; ATPase H+ transporting accessory protein 1 [KO:K03662]
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
myd00511  Other glycan degradation
myd00531  Glycosaminoglycan degradation
myd04130  SNARE interactions in vesicular transport
myd04140  Autophagy - animal
myd04144  Endocytosis
KO pathway
ko04142   

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