KEGG   PATHWAY: ccan04142
Entry
ccan04142                   Pathway                                
Name
Lysosome - Castor canadensis (American beaver)
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
ccan04142  Lysosome
ccan04142

Other DBs
GO: 0005764
Organism
Castor canadensis (American beaver) [GN:ccan]
Gene
109674769  Cd68; macrosialin [KO:K06501]
109675293  Arsb; arylsulfatase B [KO:K01135] [EC:3.1.6.12]
109676099  Ctso; cathepsin O [KO:K01374] [EC:3.4.22.42]
109676125  [KO:K01319] [EC:3.4.21.20]
109676132  [KO:K12301]
109677619  [KO:K12399]
109678064  Npc1; Niemann-Pick C1 protein [KO:K12385]
109680874  Fuca1; tissue alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]
109681133  [KO:K01197] [EC:3.2.1.35]
109681134  [KO:K01197] [EC:3.2.1.35]
109681200  Ctss; cathepsin S [KO:K01368] [EC:3.4.22.27]
109681204  Ctsk; cathepsin K isoform X1 [KO:K01371] [EC:3.4.22.38]
109681246  Man2b1; lysosomal alpha-mannosidase [KO:K12311] [EC:3.2.1.24]
109681258  Dnase2; LOW QUALITY PROTEIN: deoxyribonuclease-2-alpha [KO:K01158] [EC:3.1.22.1]
109681422  Mfsd8; major facilitator superfamily domain-containing protein 8 isoform X1 [KO:K12307]
109681741  Laptm5; lysosomal-associated transmembrane protein 5 [KO:K12387]
109681749  Laptm4a; lysosomal-associated transmembrane protein 4A [KO:K12387]
109681885  Fuca2; plasma alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]
109682023  Ctsb; cathepsin B isoform X1 [KO:K01363] [EC:3.4.22.1]
109682514  Ap1b1; AP-1 complex subunit beta-1 isoform X1 [KO:K12392]
109682634  [KO:K01137] [EC:3.1.6.14]
109682967  Manba; beta-mannosidase isoform X1 [KO:K01192] [EC:3.2.1.25]
109682998  [KO:K06564]
109682999  [KO:K06564]
109683381  Cln3; battenin isoform X1 [KO:K12389]
109683411  [KO:K01365] [EC:3.4.22.15]
109683413  [KO:K01365] [EC:3.4.22.15]
109683517  Abcb9; ATP-binding cassette sub-family B member 9 [KO:K05656]
109683542  Ap3m2; AP-3 complex subunit mu-2 [KO:K12398]
109683856  [KO:K08565] [EC:3.4.23.-]
109683880  [KO:K08565] [EC:3.4.23.-]
109684402  Ap3m1; AP-3 complex subunit mu-1 isoform X1 [KO:K12398]
109684706  Gaa; lysosomal alpha-glucosidase isoform X1 [KO:K12316] [EC:3.2.1.20]
109684800  Nagpa; N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [KO:K01125] [EC:3.1.4.45]
109684877  Atp6v0a2; V-type proton ATPase 116 kDa subunit a [KO:K02154]
109685120  Cltc; clathrin heavy chain 1 isoform X1 [KO:K04646]
109685194  [KO:K12311] [EC:3.2.1.24]
109685382  Psap; prosaposin isoform X1 [KO:K12382]
109685496  [KO:K12399]
109685676  Gga1; ADP-ribosylation factor-binding protein GGA1 isoform X1 [KO:K12404]
109685778  Cltb; clathrin light chain B [KO:K04645]
109685946  [KO:K12388]
109686164  Hexa; beta-hexosaminidase subunit alpha [KO:K12373] [EC:3.2.1.52]
109686187  Gla; LOW QUALITY PROTEIN: alpha-galactosidase A [KO:K01189] [EC:3.2.1.22]
109686292  Npc2; epididymal secretory protein E1 [KO:K13443]
109686628  Ap3d1; AP-3 complex subunit delta-1 isoform X1 [KO:K12396]
109686851  Clta; clathrin light chain A isoform X1 [KO:K04644]
109686931  Lamp1; lysosome-associated membrane glycoprotein 1 [KO:K06528]
109687087  Ctsw; cathepsin W [KO:K08569] [EC:3.4.22.-]
109687122  Ctsf; cathepsin F isoform X1 [KO:K01373] [EC:3.4.22.41]
109687326  Atp6v0a1; LOW QUALITY PROTEIN: V-type proton ATPase 116 kDa subunit a [KO:K02154]
109687328  Naglu; LOW QUALITY PROTEIN: alpha-N-acetylglucosaminidase [KO:K01205] [EC:3.2.1.50]
109687444  Psapl1; proactivator polypeptide-like 1 [KO:K12382]
109687455  Atp6v1h; V-type proton ATPase subunit H isoform X1 [KO:K02144]
109687597  Gga3; ADP-ribosylation factor-binding protein GGA3 isoform X1 [KO:K12404]
109687922  [KO:K01365] [EC:3.4.22.15]
109687925  [KO:K01365] [EC:3.4.22.15]
109688023  Gba; glucosylceramidase isoform X1 [KO:K01201] [EC:3.2.1.45]
109688090  Ap4b1; AP-4 complex subunit beta-1 isoform X1 [KO:K12401]
109688704  Dnase2b; deoxyribonuclease-2-beta [KO:K01158] [EC:3.1.22.1]
109688734  Litaf; lipopolysaccharide-induced tumor necrosis factor-alpha factor isoform X1 [KO:K19363]
109688867  Dmxl2; dmX-like protein 2 [KO:K24155]
109688897  Wdr7; WD repeat-containing protein 7 isoform X1 [KO:K24738]
109688981  [KO:K01195] [EC:3.2.1.31]
109689051  Ap1m2; AP-1 complex subunit mu-2 isoform X1 [KO:K12393]
109689053  Ap1m1; AP-1 complex subunit mu-1 [KO:K12393]
109689272  Ctsa; lysosomal protective protein [KO:K13289] [EC:3.4.16.5]
109689379  Naga; alpha-N-acetylgalactosaminidase [KO:K01204] [EC:3.2.1.49]
109689473  Gns; N-acetylglucosamine-6-sulfatase [KO:K01137] [EC:3.1.6.14]
109689589  Neu1; sialidase-1 [KO:K01186] [EC:3.2.1.18]
109689597  Dmxl1; dmX-like protein 1 isoform X1 [KO:K24155]
109689699  [KO:K12305] [EC:3.6.1.6]
109689706  [KO:K12305] [EC:3.6.1.6]
109689734  Gm2a; ganglioside GM2 activator [KO:K12383]
109689769  Ctsd; cathepsin D isoform X1 [KO:K01379] [EC:3.4.23.5]
109689939  Atp6v0c; V-type proton ATPase 16 kDa proteolipid subunit [KO:K02155]
109689941  Sgsh; N-sulphoglucosamine sulphohydrolase [KO:K01565] [EC:3.10.1.1]
109690146  Gnptg; N-acetylglucosamine-1-phosphotransferase subunit gamma isoform X1 [KO:K10087]
109690295  Gnptab; N-acetylglucosamine-1-phosphotransferase subunits alpha/beta isoform X1 [KO:K08239] [EC:2.7.8.17]
109690406  Ppt2; lysosomal thioesterase PPT2 [KO:K01074] [EC:3.1.2.22]
109690456  Ap4s1; AP-4 complex subunit sigma-1 [KO:K12403]
109690641  [KO:K10532] [EC:2.3.1.78]
109690642  [KO:K10532] [EC:2.3.1.78]
109691245  Atp6v0d1; V-type proton ATPase subunit d 1 [KO:K02146]
109691427  Ap1s2; AP-1 complex subunit sigma-2 isoform X1 [KO:K12394]
109691511  Ap3s1; AP-3 complex subunit sigma-1 isoform X1 [KO:K12399]
109691552  Ap4m1; AP-4 complex subunit mu-1 isoform X1 [KO:K12402]
109691574  Ppt1; palmitoyl-protein thioesterase 1 [KO:K01074] [EC:3.1.2.22]
109691912  Atp6ap1; LOW QUALITY PROTEIN: V-type proton ATPase subunit S1 [KO:K03662]
109692077  Tcirg1; V-type proton ATPase 116 kDa subunit a isoform X1 [KO:K02154]
109692105  Asah1; acid ceramidase [KO:K12348] [EC:3.5.1.23]
109692745  Galns; N-acetylgalactosamine-6-sulfatase isoform X1 [KO:K01132] [EC:3.1.6.4]
109692783  Ctsz; cathepsin Z isoform X1 [KO:K08568] [EC:3.4.18.1]
109692818  Ap1s1; AP-1 complex subunit sigma-1A isoform X1 [KO:K12394]
109693084  Arsa; arylsulfatase A isoform X1 [KO:K01134] [EC:3.1.6.8]
109693216  Hyal2; hyaluronidase-2 [KO:K01197] [EC:3.2.1.35]
109693223  Hyal1; hyaluronidase-1 [KO:K01197] [EC:3.2.1.35]
109693227  Hyal3; hyaluronidase-3 isoform X1 [KO:K01197] [EC:3.2.1.35]
109693698  Glb1; beta-galactosidase isoform X1 [KO:K12309] [EC:3.2.1.23]
109694016  Mcoln1; mucolipin-1 isoform X1 [KO:K04992]
109694289  Ap1g1; AP-1 complex subunit gamma-1 isoform X1 [KO:K12391]
109694465  Ctns; cystinosin isoform X1 [KO:K12386]
109694733  Lipa; lysosomal acid lipase/cholesteryl ester hydrolase [KO:K01052] [EC:3.1.1.13]
109694754  Cd164; sialomucin core protein 24 isoform X1 [KO:K06546]
109695031  Ids; iduronate 2-sulfatase isoform X1 [KO:K01136] [EC:3.1.6.13]
109695166  Laptm4b; lysosomal-associated transmembrane protein 4B [KO:K12387]
109695359  [KO:K12390]
109695496  Atp6v0b; LOW QUALITY PROTEIN: V-type proton ATPase 21 kDa proteolipid subunit [KO:K03661]
109695569  Smpd1; sphingomyelin phosphodiesterase isoform X1 [KO:K12350] [EC:3.1.4.12]
109696115  Hexb; beta-hexosaminidase subunit beta [KO:K12373] [EC:3.2.1.52]
109696189  Cd63; CD63 antigen [KO:K06497]
109696191  Acp2; lysosomal acid phosphatase [KO:K14410] [EC:3.1.3.2]
109696209  Atp6v0d2; LOW QUALITY PROTEIN: V-type proton ATPase subunit d 2 [KO:K02146]
109696314  Tpp1; tripeptidyl-peptidase 1 [KO:K01279] [EC:3.4.14.9]
109696371  Ap1s3; AP-1 complex subunit sigma-3 [KO:K12395]
109696440  [KO:K01365] [EC:3.4.22.15]
109696677  Lgmn; legumain [KO:K01369] [EC:3.4.22.34]
109696737  [KO:K21398]
109696808  Ap1g2; AP-1 complex subunit gamma-like 2 [KO:K12391]
109696829  Sumf1; sulfatase-modifying factor 1 isoform X1 [KO:K13444] [EC:1.8.3.7]
109697210  Ctsh; pro-cathepsin H isoform X1 [KO:K01366] [EC:3.4.22.16]
109697219  Ctse; cathepsin E isoform X1 [KO:K01382] [EC:3.4.23.34]
109697456  Pla2g15; group XV phospholipase A2 [KO:K06129] [EC:3.1.1.5]
109697526  [KO:K12399]
109697722  M6pr; cation-dependent mannose-6-phosphate receptor isoform X1 [KO:K10089]
109697985  Abca2; LOW QUALITY PROTEIN: ATP-binding cassette sub-family A member 2 [KO:K05642]
109698217  Aga; N(4)-(beta-N-acetylglucosaminyl)-L-asparaginase [KO:K01444] [EC:3.5.1.26]
109698229  Idua; LOW QUALITY PROTEIN: alpha-L-iduronidase [KO:K01217] [EC:3.2.1.76]
109698273  [KO:K25442]
109698510  Lamp2; lysosome-associated membrane glycoprotein 2 isoform X1 [KO:K06528]
109698646  Slc11a1; natural resistance-associated macrophage protein 1 [KO:K12347]
109699022  Ap3b2; AP-3 complex subunit beta-2 [KO:K12397]
109699388  Scarb2; lysosome membrane protein 2 [KO:K12384]
109699431  Ap3b1; AP-3 complex subunit beta-1 isoform X1 [KO:K12397]
109699639  Gga2; LOW QUALITY PROTEIN: ADP-ribosylation factor-binding protein GGA2 [KO:K12404]
109699906  Ap4e1; AP-4 complex subunit epsilon-1 isoform X1 [KO:K12400]
109700298  Lamp3; lysosome-associated membrane glycoprotein 3 [KO:K06562]
109700619  Galc; galactocerebrosidase isoform X1 [KO:K01202] [EC:3.2.1.46]
109700886  [KO:K25442]
109701066  Acp5; tartrate-resistant acid phosphatase type 5 [KO:K14379] [EC:3.1.3.2]
109701164  [KO:K12399]
109701216  Slc17a5; sialin isoform X1 [KO:K12301]
109701415  Tldc1; TLD domain-containing protein 1 isoform X1 [KO:K27947]
109701576  Ctsc; dipeptidyl peptidase 1 isoform X1 [KO:K01275] [EC:3.4.14.1]
109702168  [KO:K12390]
109702494  [KO:K01197] [EC:3.2.1.35]
109702496  [KO:K01197] [EC:3.2.1.35]
109702929  [KO:K12399]
109703088  [KO:K06546]
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
ccan00511  Other glycan degradation
ccan00531  Glycosaminoglycan degradation
ccan04130  SNARE interactions in vesicular transport
ccan04140  Autophagy - animal
ccan04144  Endocytosis
KO pathway
ko04142   

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