KEGG   PATHWAY: bbis04142
Entry
bbis04142                   Pathway                                
Name
Lysosome - Bison bison bison (American bison)
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
bbis04142  Lysosome
bbis04142

Other DBs
GO: 0005764
Organism
Bison bison bison (American bison) [GN:bbis]
Gene
104979784  ACP5; tartrate-resistant acid phosphatase type 5 [KO:K14379] [EC:3.1.3.2]
104979818  AP1M2; AP-1 complex subunit mu-2 isoform X1 [KO:K12393]
104979872  AP3D1; AP-3 complex subunit delta-1 [KO:K12396]
104979941  MCOLN1; LOW QUALITY PROTEIN: mucolipin-1 [KO:K04992]
104980125  AP1B1; AP-1 complex subunit beta-1 isoform X1 [KO:K12392]
104980337  NPC1; Niemann-Pick C1 protein [KO:K12385]
104980350  [KO:K01197] [EC:3.2.1.35]
104981035  AGA; N(4)-(beta-N-acetylglucosaminyl)-L-asparaginase isoform X1 [KO:K01444] [EC:3.5.1.26]
104981112  FUCA1; tissue alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]
104981591  AP4B1; AP-4 complex subunit beta-1 [KO:K12401]
104981679  SORT1; sortilin isoform X1 [KO:K12388]
104982013  AP1G2; AP-1 complex subunit gamma-like 2 isoform X1 [KO:K12391]
104982066  HEXA; beta-hexosaminidase subunit alpha [KO:K12373] [EC:3.2.1.52]
104982200  LAMP1; LOW QUALITY PROTEIN: lysosome-associated membrane glycoprotein 1 [KO:K06528]
104982366  SPAM1; hyaluronidase PH-20 [KO:K01197] [EC:3.2.1.35]
104982408  [KO:K01197] [EC:3.2.1.35]
104982409  [KO:K01197] [EC:3.2.1.35]
104982410  [KO:K01197] [EC:3.2.1.35]
104982793  LAMP2; lysosome-associated membrane glycoprotein 2 isoform X1 [KO:K06528]
104982912  [KO:K06497]
104983115  AP1S1; AP-1 complex subunit sigma-1A [KO:K12394]
104983800  NEU1; sialidase-1 [KO:K01186] [EC:3.2.1.18]
104984540  IDUA; alpha-L-iduronidase [KO:K01217] [EC:3.2.1.76]
104985047  CTSA; lysosomal protective protein [KO:K13289] [EC:3.4.16.5]
104985424  GLB1; beta-galactosidase [KO:K12309] [EC:3.2.1.23]
104985708  CTSV; cathepsin L2 [KO:K01365] [EC:3.4.22.15]
104985727  [KO:K01365] [EC:3.4.22.15]
104985821  LGMN; legumain [KO:K01369] [EC:3.4.22.34]
104986347  LAPTM5; lysosomal-associated transmembrane protein 5 [KO:K12387]
104986465  AP1S3; AP-1 complex subunit sigma-3 [KO:K12395]
104986578  GGA2; ADP-ribosylation factor-binding protein GGA2 isoform X1 [KO:K12404]
104986618  CLN3; battenin [KO:K12389]
104986778  GUSB; beta-glucuronidase [KO:K01195] [EC:3.2.1.31]
104986779  [KO:K01195] [EC:3.2.1.31]
104986947  TCIRG1; V-type proton ATPase 116 kDa subunit a isoform 3 isoform X1 [KO:K02154]
104986991  CTSF; cathepsin F [KO:K01373] [EC:3.4.22.41]
104987020  CTSW; cathepsin W [KO:K08569] [EC:3.4.22.-]
104987109  GALC; galactocerebrosidase isoform X1 [KO:K01202] [EC:3.2.1.46]
104987289  SCARB2; lysosome membrane protein 2 [KO:K12384]
104987404  GBA; glucosylceramidase [KO:K01201] [EC:3.2.1.45]
104987522  LIPA; lysosomal acid lipase/cholesteryl ester hydrolase [KO:K01052] [EC:3.1.1.13]
104987657  CTSK; cathepsin K [KO:K01371] [EC:3.4.22.38]
104987659  CTSS; cathepsin S [KO:K01368] [EC:3.4.22.27]
104987866  ATP6V1H; V-type proton ATPase subunit H isoform X1 [KO:K02144]
104987992  TPP1; tripeptidyl-peptidase 1 [KO:K01279] [EC:3.4.14.9]
104988012  SMPD1; sphingomyelin phosphodiesterase [KO:K12350] [EC:3.1.4.12]
104988041  CD63; CD63 antigen [KO:K06497]
104988241  AP4E1; AP-4 complex subunit epsilon-1 isoform X1 [KO:K12400]
104988272  DMXL2; dmX-like protein 2 [KO:K24155]
104988812  CTSB; cathepsin B isoform X1 [KO:K01363] [EC:3.4.22.1]
104988935  NAGPA; N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [KO:K01125] [EC:3.1.4.45]
104989010  LAPTM4A; lysosomal-associated transmembrane protein 4A [KO:K12387]
104989286  IGF2R; LOW QUALITY PROTEIN: cation-independent mannose-6-phosphate receptor [KO:K06564]
104989384  AP3S2; AP-3 complex subunit sigma-2 [KO:K12399]
104989421  AP3B2; LOW QUALITY PROTEIN: AP-3 complex subunit beta-2 [KO:K12397]
104989667  ATP6V0A2; LOW QUALITY PROTEIN: V-type proton ATPase 116 kDa subunit a isoform 2 [KO:K02154]
104989671  ABCB9; ATP-binding cassette sub-family B member 9 [KO:K05656]
104989795  GNS; N-acetylglucosamine-6-sulfatase [KO:K01137] [EC:3.1.6.14]
104989978  CTSZ; cathepsin Z [KO:K08568] [EC:3.4.18.1]
104990348  ACP2; lysosomal acid phosphatase isoform X1 [KO:K14410] [EC:3.1.3.2]
104990768  CD68; macrosialin [KO:K06501]
104990783  NAGLU; alpha-N-acetylglucosaminidase [KO:K01205] [EC:3.2.1.50]
104990784  ATP6V0A1; V-type proton ATPase 116 kDa subunit a isoform 1 [KO:K02154]
104990903  CTSH; pro-cathepsin H [KO:K01366] [EC:3.4.22.16]
104991012  [KO:K01319] [EC:3.4.21.20]
104991013  [KO:K01319] [EC:3.4.21.20]
104991253  NAGA; alpha-N-acetylgalactosaminidase [KO:K01204] [EC:3.2.1.49]
104991469  GALNS; N-acetylgalactosamine-6-sulfatase [KO:K01132] [EC:3.1.6.4]
104991588  SUMF1; sulfatase-modifying factor 1 [KO:K13444] [EC:1.8.3.7]
104992054  AP4M1; AP-4 complex subunit mu-1 [KO:K12402]
104992220  AP1S2; AP-1 complex subunit sigma-2 isoform X1 [KO:K12394]
104992248  CTSD; cathepsin D [KO:K01379] [EC:3.4.23.5]
104992264  GGA1; ADP-ribosylation factor-binding protein GGA1 [KO:K12404]
104992647  AP1M1; AP-1 complex subunit mu-1 [KO:K12393]
104992848  ARSA; arylsulfatase A [KO:K01134] [EC:3.1.6.8]
104992988  CLTA; clathrin light chain A isoform X1 [KO:K04644]
104993106  ATP6V0D2; V-type proton ATPase subunit d 2 isoform X1 [KO:K02146]
104993221  AP3M2; AP-3 complex subunit mu-2 [KO:K12398]
104993234  HGSNAT; heparan-alpha-glucosaminide N-acetyltransferase [KO:K10532] [EC:2.3.1.78]
104993363  DMXL1; dmX-like protein 1 isoform X1 [KO:K24155]
104993415  CLTB; clathrin light chain B [KO:K04645]
104993669  AP4S1; AP-4 complex subunit sigma-1 [KO:K12403]
104993805  CTSC; dipeptidyl peptidase 1 isoform X1 [KO:K01275] [EC:3.4.14.1]
104993953  ATP6AP1; V-type proton ATPase subunit S1 [KO:K03662]
104994015  CTNS; cystinosin isoform X1 [KO:K12386]
104994154  AP3B1; AP-3 complex subunit beta-1 isoform X1 [KO:K12397]
104994156  ARSB; arylsulfatase B [KO:K01135] [EC:3.1.6.12]
104994583  ENTPD4; ectonucleoside triphosphate diphosphohydrolase 4 isoform X1 [KO:K12305] [EC:3.6.1.6]
104994636  MANBA; beta-mannosidase [KO:K01192] [EC:3.2.1.25]
104995471  M6PR; cation-dependent mannose-6-phosphate receptor isoform X1 [KO:K10089]
104995682  NAPSA; napsin-A [KO:K08565] [EC:3.4.23.-]
104996333  GM2A; ganglioside GM2 activator [KO:K12383]
104996419  LITAF; lipopolysaccharide-induced tumor necrosis factor-alpha factor isoform X1 [KO:K19363]
104996587  TLDC1; TLD domain-containing protein 1 [KO:K27947]
104996630  AP1G1; AP-1 complex subunit gamma-1 isoform X1 [KO:K12391]
104996670  PLA2G15; group XV phospholipase A2 [KO:K06129] [EC:3.1.1.5]
104996696  ATP6V0D1; V-type proton ATPase subunit d 1 [KO:K02146]
104996876  SLC17A5; sialin [KO:K12301]
104997029  FUCA2; plasma alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]
104997179  HYAL2; hyaluronidase-2 [KO:K01197] [EC:3.2.1.35]
104997181  HYAL3; hyaluronidase-3 [KO:K01197] [EC:3.2.1.35]
104997182  HYAL1; hyaluronidase-1 isoform X1 [KO:K01197] [EC:3.2.1.35]
104997476  PSAP; prosaposin isoform X1 [KO:K12382]
104997523  AP3M1; AP-3 complex subunit mu-1 [KO:K12398]
104997639  CTSO; cathepsin O [KO:K01374] [EC:3.4.22.42]
104998272  ATP6V0C; V-type proton ATPase 16 kDa proteolipid subunit [KO:K02155]
104998328  GNPTAB; N-acetylglucosamine-1-phosphotransferase subunits alpha/beta [KO:K08239] [EC:2.7.8.17]
104998398  [KO:K12373] [EC:3.2.1.52]
104998454  [KO:K12373] [EC:3.2.1.52]
104999082  PSAPL1; proactivator polypeptide-like 1 [KO:K12382]
104999294  WDR7; WD repeat-containing protein 7 [KO:K24738]
104999362  ATP6V0A4; V-type proton ATPase 116 kDa subunit a isoform 4 [KO:K02154]
104999569  CLN5; ceroid-lipofuscinosis neuronal protein 5 [KO:K12390]
104999663  IDS; LOW QUALITY PROTEIN: iduronate 2-sulfatase [KO:K01136] [EC:3.1.6.13]
104999847  DNASE2; deoxyribonuclease-2-alpha [KO:K01158] [EC:3.1.22.1]
104999905  MAN2B1; lysosomal alpha-mannosidase [KO:K12311] [EC:3.2.1.24]
104999997  LAMP3; lysosome-associated membrane glycoprotein 3 isoform X1 [KO:K06562]
105000073  NPC2; epididymal secretory protein E1 [KO:K13443]
105000286  ARSG; arylsulfatase G [KO:K12381] [EC:3.1.6.-]
105000343  GGA3; ADP-ribosylation factor-binding protein GGA3 [KO:K12404]
105000411  GAA; lysosomal alpha-glucosidase [KO:K12316] [EC:3.2.1.20]
105000413  SGSH; N-sulphoglucosamine sulphohydrolase isoform X1 [KO:K01565] [EC:3.10.1.1]
105000663  CD164; sialomucin core protein 24 isoform X1 [KO:K06546]
105001514  [KO:K21398]
105001515  SLC11A2; natural resistance-associated macrophage protein 2 isoform X1 [KO:K21398]
105001516  [KO:K21398]
105001915  ASAH1; acid ceramidase [KO:K12348] [EC:3.5.1.23]
105003218  MFSD8; major facilitator superfamily domain-containing protein 8 isoform X1 [KO:K12307]
105003255  DNASE2B; deoxyribonuclease-2-beta [KO:K01158] [EC:3.1.22.1]
105003764  SLC11A1; natural resistance-associated macrophage protein 1 isoform X1 [KO:K12347]
105004065  [KO:K12387]
105004079  CLTC; clathrin heavy chain 1 isoform X1 [KO:K04646]
105004224  NCOA7; nuclear receptor coactivator 7 isoform X1 [KO:K25442]
105004470  AP3S1; AP-3 complex subunit sigma-1 [KO:K12399]
105004850  ATP6V0B; V-type proton ATPase 21 kDa proteolipid subunit [KO:K03661]
105004925  PPT1; palmitoyl-protein thioesterase 1 [KO:K01074] [EC:3.1.2.22]
105005082  GLA; LOW QUALITY PROTEIN: alpha-galactosidase A [KO:K01189] [EC:3.2.1.22]
105005507  LAPTM4B; lysosomal-associated transmembrane protein 4B isoform X1 [KO:K12387]
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 22:339-352 (2022)
DOI:10.1038/s41577-021-00626-8
Related
pathway
bbis00511  Other glycan degradation
bbis00531  Glycosaminoglycan degradation
bbis04130  SNARE interactions in vesicular transport
bbis04140  Autophagy - animal
bbis04144  Endocytosis
KO pathway
ko04142   

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