KEGG   PATHWAY: pfor04142
Entry
pfor04142                   Pathway                                
Name
Lysosome - Poecilia formosa (Amazon molly)
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
pfor04142  Lysosome
pfor04142

Other DBs
GO: 0005764
Organism
Poecilia formosa (Amazon molly) [GN:pfor]
Gene
103142457  V-type proton ATPase 116 kDa subunit a-like [KO:K02154]
103142205  atp6v0a1; V-type proton ATPase 116 kDa subunit a isoform X1 [KO:K02154]
103148596  V-type proton ATPase 116 kDa subunit a-like [KO:K02154]
103135496  V-type proton ATPase 116 kDa subunit a-like [KO:K02154]
103142850  atp6v0a2; V-type proton ATPase 116 kDa subunit a [KO:K02154]
103142660  atp6v0d1; V-type proton ATPase subunit d 1 [KO:K02146]
103135693  atp6v1h; V-type proton ATPase subunit H isoform X1 [KO:K02144]
103152495  V-type proton ATPase subunit S1-like [KO:K03662]
103153463  atp6ap1; V-type proton ATPase subunit S1 isoform X1 [KO:K03662]
103132922  V-type proton ATPase 16 kDa proteolipid subunit-like [KO:K02155]
103153341  atp6v0c; V-type proton ATPase 16 kDa proteolipid subunit [KO:K02155]
103135711  atp6v0b; V-type proton ATPase 21 kDa proteolipid subunit [KO:K03661]
103141821  dmxl1; dmX-like protein 1 [KO:K24155]
103143602  dmxl2; dmX-like protein 2 [KO:K24155]
103156586  wdr7; WD repeat-containing protein 7 isoform X1 [KO:K24738]
103138610  nuclear receptor coactivator 7-like isoform X2 [KO:K25442]
103153283  nuclear receptor coactivator 7-like isoform X3 [KO:K25442]
103131224  ctsa; lysosomal protective protein isoform X2 [KO:K13289] [EC:3.4.16.5]
103136588  lysosomal protective protein-like [KO:K13289] [EC:3.4.16.5]
103138605  cathepsin B-like [KO:K01363] [EC:3.4.22.1]
103136480  cathepsin B-like [KO:K01363] [EC:3.4.22.1]
103146262  ctsc; dipeptidyl peptidase 1 [KO:K01275] [EC:3.4.14.1]
103155220  cathepsin D [KO:K01379] [EC:3.4.23.5]
103147381  cathepsin D-like [KO:K01379] [EC:3.4.23.5]
103154275  cathepsin E-like [KO:K01382] [EC:3.4.23.34]
103149314  ctsw; cathepsin W [KO:K01373] [EC:3.4.22.41]
103147844  ctsh; pro-cathepsin H [KO:K01366] [EC:3.4.22.16]
103151583  cathepsin L1-like [KO:K01371] [EC:3.4.22.38]
103156711  cathepsin K [KO:K01371] [EC:3.4.22.38]
103144232  cathepsin L1-like [KO:K01365] [EC:3.4.22.15]
103154411  cathepsin L1-like [KO:K01365] [EC:3.4.22.15]
103154412  cathepsin L1-like [KO:K01365] [EC:3.4.22.15]
103154413  cathepsin L1-like [KO:K01365] [EC:3.4.22.15]
103154433  cathepsin L1-like [KO:K01365] [EC:3.4.22.15]
103137087  cathepsin L1-like [KO:K01365] [EC:3.4.22.15]
103137340  ctso; cathepsin O [KO:K01374] [EC:3.4.22.42]
103156712  cathepsin S [KO:K01368] [EC:3.4.22.27]
103144284  ctsz; cathepsin Z [KO:K08568] [EC:3.4.18.1]
103146313  cathepsin Z-like [KO:K08568] [EC:3.4.18.1]
103137306  cathepsin Z-like [KO:K08568] [EC:3.4.18.1]
103131492  lgmn; legumain [KO:K01369] [EC:3.4.22.34]
103144264  tpp1; tripeptidyl-peptidase 1 [KO:K01279] [EC:3.4.14.9]
103151721  gla; alpha-galactosidase A [KO:K01189] [EC:3.2.1.22]
103137808  beta-galactosidase-like [KO:K12309] [EC:3.2.1.23]
103148459  beta-galactosidase-like [KO:K12309] [EC:3.2.1.23]
103141631  gaa; lysosomal alpha-glucosidase [KO:K12316] [EC:3.2.1.20]
103136447  lysosomal alpha-glucosidase-like [KO:K12316] [EC:3.2.1.20]
103140775  gba; glucosylceramidase [KO:K01201] [EC:3.2.1.45]
103141354  idua; alpha-L-iduronidase [KO:K01217] [EC:3.2.1.76]
103144121  naga; alpha-N-acetylgalactosaminidase [KO:K01204] [EC:3.2.1.49]
103142497  alpha-N-acetylglucosaminidase-like isoform X1 [KO:K01205] [EC:3.2.1.50]
103142528  alpha-N-acetylglucosaminidase-like isoform X1 [KO:K01205] [EC:3.2.1.50]
103138759  galc; galactocerebrosidase isoform X1 [KO:K01202] [EC:3.2.1.46]
103133841  gusb; beta-glucuronidase isoform X2 [KO:K01195] [EC:3.2.1.31]
103144712  fuca2; plasma alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]
103143320  fuca1; tissue alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]
103141324  beta-hexosaminidase subunit alpha-like isoform X1 [KO:K12373] [EC:3.2.1.52]
103135890  hexb; beta-hexosaminidase subunit beta isoform X1 [KO:K12373] [EC:3.2.1.52]
103150061  manba; beta-mannosidase [KO:K01192] [EC:3.2.1.25]
103136455  man2b1; lysosomal alpha-mannosidase [KO:K12311] [EC:3.2.1.24]
103133094  neu1; sialidase-1 [KO:K01186] [EC:3.2.1.18]
103154582  sialidase-1 [KO:K01186] [EC:3.2.1.18]
103155921  hyaluronidase-3-like [KO:K01197] [EC:3.2.1.35]
103137977  hyaluronidase-2-like isoform X3 [KO:K01197] [EC:3.2.1.35]
103138453  hyaluronidase-2-like [KO:K01197] [EC:3.2.1.35]
103138462  hyaluronidase-1-like [KO:K01197] [EC:3.2.1.35]
103152701  hyaluronidase-4-like [KO:K01197] [EC:3.2.1.35]
103152702  hyaluronidase-like isoform X2 [KO:K01197] [EC:3.2.1.35]
103152703  hyaluronidase PH-20 [KO:K01197] [EC:3.2.1.35]
103136956  hyaluronidase-2 [KO:K01197] [EC:3.2.1.35]
103136965  hyaluronidase-1 isoform X1 [KO:K01197] [EC:3.2.1.35]
103154001  hyaluronidase-2-like [KO:K01197] [EC:3.2.1.35]
103133745  arsa; arylsulfatase A [KO:K01134] [EC:3.1.6.8]
103135837  arsb; arylsulfatase B isoform X1 [KO:K01135] [EC:3.1.6.12]
103142896  arsg; arylsulfatase G isoform X1 [KO:K12381] [EC:3.1.6.-]
103139344  galns; N-acetylgalactosamine-6-sulfatase [KO:K01132] [EC:3.1.6.4]
103151749  N-acetylglucosamine-6-sulfatase-like [KO:K01137] [EC:3.1.6.14]
103140202  gns; N-acetylglucosamine-6-sulfatase isoform X1 [KO:K01137] [EC:3.1.6.14]
103149292  ids; iduronate 2-sulfatase isoform X1 [KO:K01136] [EC:3.1.6.13]
103150518  N-sulphoglucosamine sulphohydrolase-like isoform X1 [KO:K01565] [EC:3.10.1.1]
103150523  N-sulphoglucosamine sulphohydrolase-like isoform X1 [KO:K01565] [EC:3.10.1.1]
103129789  lipa; lysosomal acid lipase/cholesteryl ester hydrolase isoform X1 [KO:K01052] [EC:3.1.1.13]
103142507  group XV phospholipase A2-like [KO:K06129] [EC:3.1.1.5]
103142527  group XV phospholipase A2 [KO:K06129] [EC:3.1.1.5]
103143909  deoxyribonuclease-2-beta-like isoform X1 [KO:K01158] [EC:3.1.22.1]
103130893  deoxyribonuclease-2-beta-like [KO:K01158] [EC:3.1.22.1]
103130900  deoxyribonuclease-2-alpha-like [KO:K01158] [EC:3.1.22.1]
103152424  dnase2; deoxyribonuclease-2-alpha isoform X3 [KO:K01158] [EC:3.1.22.1]
103130331  lysosomal acid phosphatase-like isoform X1 [KO:K14410] [EC:3.1.3.2]
103130333  lysosomal acid phosphatase-like [KO:K14410] [EC:3.1.3.2]
103131974  acp5; tartrate-resistant acid phosphatase type 5 [KO:K14379] [EC:3.1.3.2]
103140580  smpd1; sphingomyelin phosphodiesterase [KO:K12350] [EC:3.1.4.12]
103136381  asah1; acid ceramidase [KO:K12348] [EC:3.5.1.23]
103137338  aga; N(4)-(beta-N-acetylglucosaminyl)-L-asparaginase [KO:K01444] [EC:3.5.1.26]
103151850  prosaposin-like isoform X2 [KO:K12382]
103134132  psap; prosaposin isoform X1 [KO:K12382]
103136859  gm2a; ganglioside GM2 activator [KO:K12383]
103154662  lysosomal thioesterase PPT2-A-like [KO:K01074] [EC:3.1.2.22]
103154541  ppt2; lysosomal thioesterase PPT2 [KO:K01074] [EC:3.1.2.22]
103154976  ppt1; palmitoyl-protein thioesterase 1 [KO:K01074] [EC:3.1.2.22]
103139388  lamp1; lysosome-associated membrane glycoprotein 1 [KO:K06528]
103140328  lysosome-associated membrane glycoprotein 1-like [KO:K06528]
103150192  lamp2; lysosome-associated membrane glycoprotein 2 isoform X1 [KO:K06528]
103155247  lysosome-associated membrane glycoprotein 3 isoform X1 [KO:K06562]
103148899  G8 domain-containing protein DDB_G0286311-like [KO:K06501]
103139129  cd63; CD63 antigen [KO:K06497]
103142337  CD63 antigen-like [KO:K06497]
103148208  lysosome membrane protein 2-like [KO:K12384]
103141994  lysosome membrane protein 2-like isoform X1 [KO:K12384]
103142710  scarb2; lysosome membrane protein 2 isoform X2 [KO:K12384]
103135728  npc1; Niemann-Pick C1 protein [KO:K12385]
103136179  epididymal secretory protein E1-like [KO:K13443]
103136181  epididymal secretory protein E1-like [KO:K13443]
103131133  ctns; cystinosin [KO:K12386]
107836121  sialin-like [KO:K12301]
103137386  sialin [KO:K12301]
103143461  sialin-like [KO:K12301]
103144289  natural resistance-associated macrophage protein 2-like isoform X1 [KO:K21398]
103148219  natural resistance-associated macrophage protein 2-like [KO:K21398]
103134105  laptm4a; lysosomal-associated transmembrane protein 4A [KO:K12387]
103135168  lysosomal-associated transmembrane protein 4B-like [KO:K12387]
103135169  lysosomal-associated transmembrane protein 4B-like [KO:K12387]
103136995  lysosomal-associated transmembrane protein 4B [KO:K12387]
103129321  abca2; ATP-binding cassette sub-family A member 2 isoform X1 [KO:K05642]
103152806  abcb9; ATP-binding cassette sub-family B member 9 isoform X1 [KO:K05656]
103134661  cd164; sialomucin core protein 24 isoform X1 [KO:K06546]
103145661  entpd4; ectonucleoside triphosphate diphosphohydrolase 4 isoform X1 [KO:K12305] [EC:3.6.1.6]
103144340  sort1; sortilin isoform X1 [KO:K12388]
103151056  sortilin-like isoform X2 [KO:K12388]
103146243  sortilin-like [KO:K12388]
103154365  cln3; battenin [KO:K12389]
103134733  cln5; ceroid-lipofuscinosis neuronal protein 5 [KO:K12390]
103130262  major facilitator superfamily domain-containing protein 8-like [KO:K12307]
103145188  mfsd8; major facilitator superfamily domain-containing protein 8 [KO:K12307]
103139968  major facilitator superfamily domain-containing protein 8-like [KO:K12307]
103137789  heparan-alpha-glucosaminide N-acetyltransferase-like [KO:K10532] [EC:2.3.1.78]
103148274  heparan-alpha-glucosaminide N-acetyltransferase-like [KO:K10532] [EC:2.3.1.78]
103147631  sumf1; sulfatase-modifying factor 1 [KO:K13444] [EC:1.8.3.7]
103156924  gnptab; N-acetylglucosamine-1-phosphotransferase subunits alpha/beta [KO:K08239] [EC:2.7.8.17]
103155118  N-acetylglucosamine-1-phosphotransferase subunit gamma-like [KO:K10087]
103155088  N-acetylglucosamine-1-phosphotransferase subunit gamma-like [KO:K10087]
103155092  N-acetylglucosamine-1-phosphotransferase subunit gamma-like [KO:K10087]
103152433  nagpa; N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [KO:K01125] [EC:3.1.4.45]
103129229  igf2r; cation-independent mannose-6-phosphate receptor [KO:K06564]
103136713  m6pr; cation-dependent mannose-6-phosphate receptor [KO:K10089]
103148743  clathrin light chain A isoform X1 [KO:K04644]
103144534  cltb; clathrin light chain B isoform X3 [KO:K04645]
103145869  clathrin heavy chain 1-like isoform X4 [KO:K04646]
103145870  clathrin heavy chain 1-like isoform X4 [KO:K04646]
103154595  clathrin heavy chain 1 isoform X4 [KO:K04646]
103142087  cltc; clathrin heavy chain 1 isoform X3 [KO:K04646]
103150729  ap1g1; AP-1 complex subunit gamma-1 isoform X1 [KO:K12391]
103138413  AP-1 complex subunit gamma-1-like [KO:K12391]
103151838  AP-1 complex subunit beta-1 isoform X3 [KO:K12392]
103142983  AP-1 complex subunit beta-1-like isoform X1 [KO:K12392]
103137718  ap1m2; AP-1 complex subunit mu-2 isoform X1 [KO:K12393]
103146062  ap1m1; AP-1 complex subunit mu-1 [KO:K12393]
103137203  AP-1 complex subunit mu-1-like [KO:K12393]
103148860  AP-1 complex subunit sigma-1A [KO:K12394]
103148963  ap1s1; AP-1 complex subunit sigma-1A isoform X1 [KO:K12394]
103143570  ap1s2; AP-1 complex subunit sigma-2 [KO:K12394]
103137158  AP-1 complex subunit sigma-2-like [KO:K12394]
103145231  ap1s3; AP-1 complex subunit sigma-3 [KO:K12395]
103156875  ap3d1; AP-3 complex subunit delta-1 isoform X7 [KO:K12396]
103134533  ap3b2; AP-3 complex subunit beta-2 isoform X9 [KO:K12397]
103135841  ap3b1; AP-3 complex subunit beta-1 isoform X1 [KO:K12397]
103146703  ap3m2; AP-3 complex subunit mu-2 [KO:K12398]
103134050  AP-3 complex subunit mu-1-like [KO:K12398]
103134053  AP-3 complex subunit mu-1-like [KO:K12398]
103141757  ap3s1; AP-3 complex subunit sigma-1 isoform X1 [KO:K12399]
103149870  AP-3 complex subunit sigma-2 [KO:K12399]
103156495  ap4e1; AP-4 complex subunit epsilon-1 [KO:K12400]
103150231  ap4b1; AP-4 complex subunit beta-1 [KO:K12401]
103156623  ap4m1; AP-4 complex subunit mu-1 [KO:K12402]
103156168  ap4s1; AP-4 complex subunit sigma-1 [KO:K12403]
103132688  ADP-ribosylation factor-binding protein GGA1-like [KO:K12404]
103136438  ADP-ribosylation factor-binding protein GGA3-like [KO:K12404]
103150115  gga3; ADP-ribosylation factor-binding protein GGA3 [KO:K12404]
103143620  gga1; ADP-ribosylation factor-binding protein GGA1 isoform X1 [KO:K12404]
103150122  mucolipin-1-like [KO:K04992]
103154954  mucolipin-1-like [KO:K04992]
103150090  mucolipin-1-like [KO:K04992]
103150555  cell death-inducing p53-target protein 1 homolog [KO:K19363]
103131590  lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [KO:K19363]
103145460  lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [KO:K19363]
103145462  lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [KO:K19363]
103136440  lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [KO:K19363]
103145507  cell death-inducing p53-target protein 1 homolog [KO:K19363]
103143777  snrnp25; U11/U12 small nuclear ribonucleoprotein 25 kDa protein isoform X1 [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
pfor00511  Other glycan degradation
pfor00531  Glycosaminoglycan degradation
pfor04130  SNARE interactions in vesicular transport
pfor04140  Autophagy - animal
pfor04144  Endocytosis
KO pathway
ko04142   
LinkDB

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