KEGG   PATHWAY: cide04142
Entry
cide04142                   Pathway                                
Name
Lysosome - Ctenopharyngodon idella (grass carp)
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
cide04142  Lysosome
cide04142

Other DBs
GO: 0005764
Organism
Ctenopharyngodon idella (grass carp) [GN:cide]
Gene
127506199  V-type proton ATPase 116 kDa subunit a isoform X1 [KO:K02154]
127506319  si:ch73-173p19.2; V-type proton ATPase 116 kDa subunit a 1 [KO:K02154]
127494203  T cell immune regulator 1, ATPase H+ transporting V0 subunit a3b [KO:K02154]
127508635  V-type proton ATPase 116 kDa subunit a isoform X1 [KO:K02154]
127517145  V-type proton ATPase 116 kDa subunit a 3 isoform X1 [KO:K02154]
127520144  V-type proton ATPase 116 kDa subunit a 2 isoform X1 [KO:K02154]
127513451  V-type proton ATPase 116 kDa subunit a [KO:K02154]
127515962  V-type proton ATPase subunit d 1 [KO:K02146]
127525439  V-type proton ATPase subunit H isoform X1 [KO:K02144]
127504846  V-type proton ATPase subunit S1b [KO:K03662]
127505420  ATPase H+ transporting accessory protein 1a [KO:K03662]
127506071  ATPase H+ transporting V0 subunit cb [KO:K02155]
127509676  ATPase H+ transporting V0 subunit ca [KO:K02155]
127498242  V-type proton ATPase 21 kDa proteolipid subunit [KO:K03661]
127499891  dmX-like protein 2 isoform X1 [KO:K24155]
127517324  dmX-like protein 1 isoform X1 [KO:K24155]
127504274  WD repeat-containing protein 7 isoform X1 [KO:K24738]
127501917  nuclear receptor coactivator 7 isoform X1 [KO:K25442]
127502439  nuclear receptor coactivator 7-like isoform X1 [KO:K25442]
127498496  si:ch211-15d5.11; oxidation resistance protein 1 isoform X1 [KO:K25442]
127514674  lysosomal protective protein isoform X1 [KO:K13289] [EC:3.4.16.5]
127515385  si:ch211-122f10.4; cathepsin A-like [KO:K13289] [EC:3.4.16.5]
127501960  cathepsin Bb [KO:K01363] [EC:3.4.22.1]
127502348  cathepsin B-like [KO:K01363] [EC:3.4.22.1]
127498308  cathepsin B isoform X1 [KO:K01363] [EC:3.4.22.1]
127495246  dipeptidyl peptidase 1 [KO:K01275] [EC:3.4.14.1]
127499438  cathepsin D [KO:K01379] [EC:3.4.23.5]
127508525  napsin-A [KO:K01379] [EC:3.4.23.5]
127511203  nothepsin [KO:K01382] [EC:3.4.23.34]
127494681  cathepsin F [KO:K01373] [EC:3.4.22.41]
127499510  pro-cathepsin H [KO:K01366] [EC:3.4.22.16]
127496726  cathepsin K-like [KO:K01371] [EC:3.4.22.38]
127521886  procathepsin L [KO:K01365] [EC:3.4.22.15]
127512452  cathepsin L, like [KO:K01365] [EC:3.4.22.15]
127513355  cathepsin La [KO:K01365] [EC:3.4.22.15]
127499012  cathepsin L.1 [KO:K01365] [EC:3.4.22.15]
127525664  cathepsin O [KO:K01374] [EC:3.4.22.42]
127501492  cathepsin S, ortholog 1 [KO:K01368] [EC:3.4.22.27]
127496727  cathepsin S-like [KO:K01368] [EC:3.4.22.27]
127496728  cathepsin S-like [KO:K01368] [EC:3.4.22.27]
127502464  cathepsin Z [KO:K08568] [EC:3.4.18.1]
127513969  cathepsin Z [KO:K08568] [EC:3.4.18.1]
127523269  legumain-like [KO:K01369] [EC:3.4.22.34]
127524985  legumain isoform X1 [KO:K01369] [EC:3.4.22.34]
127518729  legumain-like [KO:K01369] [EC:3.4.22.34]
127515139  legumain-like [KO:K01369] [EC:3.4.22.34]
127498869  tripeptidyl-peptidase 1 isoform X1 [KO:K01279] [EC:3.4.14.9]
127494516  alpha-galactosidase A [KO:K01189] [EC:3.2.1.22]
127522653  beta-galactosidase [KO:K12309] [EC:3.2.1.23]
127509782  lysosomal alpha-glucosidase isoform X1 [KO:K12316] [EC:3.2.1.20]
127509846  lysosomal alpha-glucosidase [KO:K12316] [EC:3.2.1.20]
127496800  LOW QUALITY PROTEIN: lysosomal acid glucosylceramidase [KO:K01201] [EC:3.2.1.45]
127512533  alpha-L-iduronidase isoform X1 [KO:K01217] [EC:3.2.1.76]
127510944  alpha-N-acetylgalactosaminidase [KO:K01204] [EC:3.2.1.49]
127506021  alpha-N-acetylglucosaminidase [KO:K01205] [EC:3.2.1.50]
127502066  galactocerebrosidase isoform X1 [KO:K01202] [EC:3.2.1.46]
127498815  galactocerebrosidase [KO:K01202] [EC:3.2.1.46]
127513083  beta-glucuronidase isoform X1 [KO:K01195] [EC:3.2.1.31]
127500951  tissue alpha-L-fucosidase-like isoform X1 [KO:K01206] [EC:3.2.1.51]
127498256  plasma alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]
127507186  beta-hexosaminidase subunit alpha isoform X1 [KO:K12373] [EC:3.2.1.52]
127512542  beta-hexosaminidase subunit beta isoform X1 [KO:K12373] [EC:3.2.1.52]
127524746  beta-mannosidase isoform X1 [KO:K01192] [EC:3.2.1.25]
127522214  lysosomal alpha-mannosidase [KO:K12311] [EC:3.2.1.24]
127500519  sialidase-1-like [KO:K01186] [EC:3.2.1.18]
127500521  sialidase-1-like isoform X1 [KO:K01186] [EC:3.2.1.18]
127514288  hyaluronidase-2 [KO:K01197] [EC:3.2.1.35]
127514290  hyaluronidase-1 [KO:K01197] [EC:3.2.1.35]
127507195  hyaluronoglucosaminidase 6 [KO:K01197] [EC:3.2.1.35]
127507651  hyaluronidase PH-20 isoform X1 [KO:K01197] [EC:3.2.1.35]
127507675  hyaluronidase-4 [KO:K01197] [EC:3.2.1.35]
127517725  si:dkey-72l14.3; glyco_hydro_56 domain-containing protein [KO:K01197] [EC:3.2.1.35]
127517730  hyaluronidase-3 [KO:K01197] [EC:3.2.1.35]
127521047  hyaluronidase-2 [KO:K01197] [EC:3.2.1.35]
127500018  arylsulfatase A isoform X1 [KO:K01134] [EC:3.1.6.8]
127504045  LOW QUALITY PROTEIN: arylsulfatase B-like [KO:K01135] [EC:3.1.6.12]
127523414  arylsulfatase G [KO:K12381] [EC:3.1.6.-]
127516461  N-acetylgalactosamine-6-sulfatase [KO:K01132] [EC:3.1.6.4]
127510759  N-acetylglucosamine-6-sulfatase [KO:K01137] [EC:3.1.6.14]
127520193  glucosamine (N-acetyl)-6-sulfatase (Sanfilippo disease IIID), b [KO:K01137] [EC:3.1.6.14]
127494066  iduronate 2-sulfatase isoform X1 [KO:K01136] [EC:3.1.6.13]
127520948  N-sulphoglucosamine sulphohydrolase [KO:K01565] [EC:3.10.1.1]
127523383  gastric triacylglycerol lipase [KO:K01052] [EC:3.1.1.13]
127506971  group XV phospholipase A2 isoform X1 [KO:K06129] [EC:3.1.1.5]
127496815  deoxyribonuclease-2-alpha [KO:K01158] [EC:3.1.22.1]
127516843  lysosomal acid phosphatase isoform X1 [KO:K14410] [EC:3.1.3.2]
127523909  lysosomal acid phosphatase-like [KO:K14410] [EC:3.1.3.2]
127514246  tartrate-resistant acid phosphatase type 5a [KO:K14379] [EC:3.1.3.2]
127505775  tartrate-resistant acid phosphatase type 5b [KO:K14379] [EC:3.1.3.2]
127520262  sphingomyelin phosphodiesterase [KO:K12350] [EC:3.1.4.12]
127494660  N-acylsphingosine amidohydrolase (acid ceramidase) 1a isoform X1 [KO:K12348] [EC:3.5.1.23]
127495397  acid ceramidase isoform X1 [KO:K12348] [EC:3.5.1.23]
127494525  N(4)-(beta-N-acetylglucosaminyl)-L-asparaginase [KO:K01444] [EC:3.5.1.26]
127525496  zgc:153169; N(4)-(Beta-N-acetylglucosaminyl)-L-asparaginase [KO:K01444] [EC:3.5.1.26]
127525259  prosaposin [KO:K12382]
127494328  ganglioside GM2 activator [KO:K12383]
127500459  palmitoyl-protein thioesterase 1 [KO:K01074] [EC:3.1.2.22]
127501093  lysosomal thioesterase PPT2 isoform X1 [KO:K01074] [EC:3.1.2.22]
127508936  lysosome-associated membrane glycoprotein 1a [KO:K06528]
127518577  lysosome-associated membrane glycoprotein 1b [KO:K06528]
127521382  lysosome-associated membrane glycoprotein 3 isoform X1 [KO:K06562]
127515370  macrosialin [KO:K06501]
127504660  CD63 antigen [KO:K06497]
127503519  lysosome membrane protein 2c [KO:K12384]
127503568  lysosome membrane protein 2 [KO:K12384]
127512386  lysosome membrane protein 2a isoform X1 [KO:K12384]
127505753  NPC intracellular cholesterol transporter 1 [KO:K12385]
127498996  NPC intracellular cholesterol transporter 2-like [KO:K13443]
127522581  cystinosin [KO:K12386]
127500457  si:ch1073-513e17.1; sialin [KO:K12301]
127524369  sialin [KO:K12301]
127522567  natural resistance-associated macrophage protein 2 [KO:K21398]
127522954  natural resistance-associated macrophage protein 2-like isoform X1 [KO:K21398]
127501365  lysosomal-associated transmembrane protein 4B [KO:K12387]
127501795  lysosomal-associated transmembrane protein 4A [KO:K12387]
127512066  ATP-binding cassette sub-family A member 2 isoform X1 [KO:K05642]
127513670  ATP-binding cassette sub-family B member 9 [KO:K05656]
127501903  sialomucin core protein 24 [KO:K06546]
127517504  ectonucleoside triphosphate diphosphohydrolase 4 isoform X1 [KO:K12305] [EC:3.6.1.6]
127522042  sortilin [KO:K12388]
127516932  sortilin 1b isoform X1 [KO:K12388]
127510837  si:dkey-159a18.1; sortilin [KO:K12388]
127508593  battenin isoform X1 [KO:K12389]
127518807  ceroid-lipofuscinosis neuronal protein 5 [KO:K12390]
127521655  major facilitator superfamily domain-containing protein 8 [KO:K12307]
127500103  uncharacterized protein LOC127500103 [KO:K12307]
127523567  major facilitator superfamily domain-containing protein 8 isoform X1 [KO:K12307]
127515353  heparan-alpha-glucosaminide N-acetyltransferase isoform X1 [KO:K10532] [EC:2.3.1.78]
127524402  si:dkey-192p21.6; heparan-alpha-glucosaminide N-acetyltransferase isoform X1 [KO:K10532] [EC:2.3.1.78]
127514669  formylglycine-generating enzyme [KO:K13444] [EC:1.8.3.7]
127510466  N-acetylglucosamine-1-phosphotransferase subunits alpha/beta isoform X1 [KO:K08239] [EC:2.7.8.17]
127505886  N-acetylglucosamine-1-phosphotransferase subunit gamma [KO:K10087]
127497035  N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase isoform X1 [KO:K01125] [EC:3.1.4.45]
127502758  cation-independent mannose-6-phosphate receptor [KO:K06564]
127496637  cation-dependent mannose-6-phosphate receptor [KO:K10089]
127508810  clathrin light chain A isoform X1 [KO:K04644]
127494747  clathrin light chain B isoform X1 [KO:K04645]
127517646  clathrin heavy chain 1 isoform X1 [KO:K04646]
127496108  clathrin, heavy chain b (Hc) isoform X1 [KO:K04646]
127520725  clathrin, heavy chain a (Hc) [KO:K04646]
127499201  AP-1 complex subunit gamma-like 2 [KO:K12391]
127515164  AP-1 complex subunit gamma-1 isoform X1 [KO:K12391]
127512552  AP-1 complex subunit beta-1 isoform X1 [KO:K12392]
127499159  AP-1 complex subunit mu-1 [KO:K12393]
127514507  adaptor related protein complex 1 subunit mu 3 [KO:K12393]
127514778  AP-1 complex subunit mu-2 [KO:K12393]
127515274  AP-1 complex subunit sigma-1A isoform X1 [KO:K12394]
127522196  AP-1 complex subunit sigma-2 isoform X1 [KO:K12394]
127500942  AP-1 complex subunit sigma-3b isoform X1 [KO:K12395]
127496048  AP-1 complex subunit sigma-3a [KO:K12395]
127521061  AP-3 complex subunit delta-1 isoform X1 [KO:K12396]
127507018  LOW QUALITY PROTEIN: AP-3 complex subunit beta-2 [KO:K12397]
127503655  AP-3 complex subunit beta-1 isoform X1 [KO:K12397]
127524671  AP-3 complex subunit mu-1 [KO:K12398]
127512837  AP-3 complex subunit mu-2 [KO:K12398]
127507417  AP-3 complex subunit sigma-2 [KO:K12399]
127517340  AP-3 complex subunit sigma-1 isoform X1 [KO:K12399]
127507120  AP-4 complex subunit epsilon-1 [KO:K12400]
127504711  AP-4 complex subunit beta-1 [KO:K12401]
127521692  LOW QUALITY PROTEIN: AP-4 complex subunit mu-1 [KO:K12402]
127498837  AP-4 complex subunit sigma-1 isoform X1 [KO:K12403]
127514338  ADP-ribosylation factor-binding protein GGA3a [KO:K12404]
127509902  LOW QUALITY PROTEIN: ADP-ribosylation factor-binding protein GGA3 [KO:K12404]
127513864  ADP-ribosylation factor-binding protein GGA1 [KO:K12404]
127509518  mucolipin-1b [KO:K04992]
127522224  si:dkeyp-75b4.8; lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [KO:K19363]
127509194  lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [KO:K19363]
127516675  si:ch211-202h22.9; LITAF domain-containing protein [KO:K19363]
127516750  si:ch211-202h22.8; lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog-like [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
cide00511  Other glycan degradation
cide00531  Glycosaminoglycan degradation
cide04130  SNARE interactions in vesicular transport
cide04140  Autophagy - animal
cide04144  Endocytosis
KO pathway
ko04142   
LinkDB

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