KEGG   PATHWAY: cery04142
Entry
cery04142                   Pathway                                
Name
Lysosome - Chanodichthys erythropterus (predatory 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
cery04142  Lysosome
cery04142

Other DBs
GO: 0005764
Organism
Chanodichthys erythropterus (predatory carp) [GN:cery]
Gene
137002652  ap1m1; AP-1 complex subunit mu-1 [KO:K12393]
137002665  ap1s3b; AP-1 complex subunit sigma-3b isoform X1 [KO:K12395]
137002763  atp6v1h; V-type proton ATPase subunit H isoform X1 [KO:K02144]
137002877  ap1g2; AP-1 complex subunit gamma-like 2 [KO:K12391]
137002967  npc1; NPC intracellular cholesterol transporter 1 [KO:K12385]
137002974  [KO:K08568] [EC:3.4.18.1]
137003333  atp6v0b; V-type proton ATPase 21 kDa proteolipid subunit [KO:K03661]
137003668  mfsd8l2; major facilitator superfamily domain-containing protein 8 [KO:K12307]
137004365  ctsc; dipeptidyl peptidase 1 [KO:K01275] [EC:3.4.14.1]
137004431  ap1s3a; AP-1 complex subunit sigma-3a [KO:K12395]
137004855  cltcb; clathrin, heavy chain b (Hc) [KO:K04646]
137006216  ap4s1; AP-4 complex subunit sigma-1 [KO:K12403]
137006342  ctsba; cathepsin B isoform X1 [KO:K01363] [EC:3.4.22.1]
137006364  tpp1; tripeptidyl-peptidase 1 [KO:K01279] [EC:3.4.14.9]
137006409  fuca2; plasma alpha-L-fucosidase isoform X1 [KO:K01206] [EC:3.2.1.51]
137006510  [KO:K13443]
137006576  si:ch211-15d5.11; oxidation resistance protein 1 [KO:K25442]
137006914  gm2a; ganglioside GM2 activator [KO:K12383]
137006935  galcb; galactocerebrosidase [KO:K01202] [EC:3.2.1.46]
137007184  ctsl.1; cathepsin L.1 isoform X1 [KO:K01365] [EC:3.4.22.15]
137007367  mfsd8; major facilitator superfamily domain-containing protein 8 [KO:K12307]
137007421  [KO:K14410] [EC:3.1.3.2]
137007438  [KO:K19363]
137007620  arsg; arylsulfatase G [KO:K12381] [EC:3.1.6.-]
137007872  lipf; gastric triacylglycerol lipase [KO:K01052] [EC:3.1.1.13]
137008346  [KO:K01369] [EC:3.4.22.34]
137008853  cd63; CD63 antigen [KO:K06497]
137008859  atp6ap1a; ATPase H+ transporting accessory protein 1a [KO:K03662]
137008863  mcoln1b; mucolipin-1b [KO:K04992]
137008981  asah1a; N-acylsphingosine amidohydrolase (acid ceramidase) 1a [KO:K12348] [EC:3.5.1.23]
137009038  [KO:K12394]
137009387  atp6ap1b; V-type proton ATPase subunit S1b [KO:K03662]
137009564  ap4b1; AP-4 complex subunit beta-1 [KO:K12401]
137010607  gga3a; ADP-ribosylation factor-binding protein GGA3a isoform X1 [KO:K12404]
137010617  gga1; ADP-ribosylation factor-binding protein GGA1 isoform X1 [KO:K12404]
137010796  ctsz; cathepsin Z [KO:K08568] [EC:3.4.18.1]
137010872  sumf1; formylglycine-generating enzyme [KO:K13444] [EC:1.8.3.7]
137010984  hyal2a; hyaluronidase-2 [KO:K01197] [EC:3.2.1.35]
137011182  ctsa; lysosomal protective protein [KO:K13289] [EC:3.4.16.5]
137011395  ap1m3; adaptor related protein complex 1 subunit mu 3 [KO:K12393]
137011413  acp5a; tartrate-resistant acid phosphatase type 5a [KO:K14379] [EC:3.1.3.2]
137011497  hyal1; hyaluronidase-1 [KO:K01197] [EC:3.2.1.35]
137011704  ap1m2; AP-1 complex subunit mu-2 [KO:K12393]
137012055  ap3b1a; AP-3 complex subunit beta-1 isoform X1 [KO:K12397]
137012176  [KO:K24738]
137012473  cln3; battenin [KO:K12389]
137012547  scarb2b; lysosome membrane protein 2 [KO:K12384]
137012548  scarb2c; lysosome membrane protein 2c [KO:K12384]
137012643  [KO:K12384]
137012883  [KO:K01135] [EC:3.1.6.12]
137013464  atp6v0a1b; V-type proton ATPase 116 kDa subunit a [KO:K02154]
137013671  si:ch73-173p19.2; V-type proton ATPase 116 kDa subunit a 1 [KO:K02154]
137013923  acp5b; tartrate-resistant acid phosphatase type 5b [KO:K14379] [EC:3.1.3.2]
137013924  gnptg; N-acetylglucosamine-1-phosphotransferase subunit gamma [KO:K10087]
137013991  naglu; alpha-N-acetylglucosaminidase isoform X1 [KO:K01205] [EC:3.2.1.50]
137014131  atp6v0cb; ATPase H+ transporting V0 subunit cb [KO:K02155]
137014466  pla2g15; group XV phospholipase A2 [KO:K06129] [EC:3.1.1.5]
137014953  hexa; beta-hexosaminidase subunit alpha isoform X1 [KO:K12373] [EC:3.2.1.52]
137014954  ap4e1; AP-4 complex subunit epsilon-1 isoform X1 [KO:K12400]
137015093  hyal6; hyaluronoglucosaminidase 6 [KO:K01197] [EC:3.2.1.35]
137015242  hyal4; hyaluronidase-4 [KO:K01197] [EC:3.2.1.35]
137015272  ap3s2; AP-3 complex subunit sigma-2 [KO:K12399]
137015278  [KO:K12397]
137015322  spam1; hyaluronidase PH-20 [KO:K01197] [EC:3.2.1.35]
137016474  ctso; cathepsin O isoform X1 [KO:K01374] [EC:3.4.22.42]
137016985  gla; alpha-galactosidase A [KO:K01189] [EC:3.2.1.22]
137017200  gga3b; ADP-ribosylation factor-binding protein GGA3 isoform X1 [KO:K12404]
137017339  gaa; lysosomal alpha-glucosidase isoform X1 [KO:K12316] [EC:3.2.1.20]
137017344  ids; iduronate 2-sulfatase isoform X1 [KO:K01136] [EC:3.1.6.13]
137017371  napsa; napsin-A [KO:K01379] [EC:3.4.23.5]
137017466  atp6v0ca; ATPase H+ transporting V0 subunit ca [KO:K02155]
137017484  atp6v0a1a; V-type proton ATPase 116 kDa subunit a isoform X1 [KO:K02154]
137017805  litaf; lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [KO:K19363]
137018544  laptm4a; lysosomal-associated transmembrane protein 4A [KO:K12387]
137018646  ctsbb; cathepsin Bb [KO:K01363] [EC:3.4.22.1]
137019039  cd164; sialomucin core protein 24 [KO:K06546]
137019162  igf2r; cation-independent mannose-6-phosphate receptor [KO:K06564]
137019241  tcirg1b; T cell immune regulator 1, ATPase H+ transporting V0 subunit a3b [KO:K02154]
137019253  ncoa7b; nuclear receptor coactivator 7 [KO:K25442]
137019312  galca; galactocerebrosidase [KO:K01202] [EC:3.2.1.46]
137020055  zgc:153169; N(4)-(Beta-N-acetylglucosaminyl)-L-asparaginase [KO:K01444] [EC:3.5.1.26]
137020276  manba; beta-mannosidase isoform X1 [KO:K01192] [EC:3.2.1.25]
137020552  ap3m1; AP-3 complex subunit mu-1 [KO:K12398]
137020568  si:dkey-192p21.6; heparan-alpha-glucosaminide N-acetyltransferase [KO:K10532] [EC:2.3.1.78]
137020581  slc17a5; sialin [KO:K12301]
137020713  lgmn; legumain [KO:K01369] [EC:3.4.22.34]
137020749  psap; prosaposin isoform X1 [KO:K12382]
137021144  ap1s2; AP-1 complex subunit sigma-2 [KO:K12394]
137021195  ctns; cystinosin [KO:K12386]
137021447  sort1a; sortilin [KO:K12388]
137021453  aga; N(4)-(beta-N-acetylglucosaminyl)-L-asparaginase isoform X1 [KO:K01444] [EC:3.5.1.26]
137021478  man2b1; lysosomal alpha-mannosidase [KO:K12311] [EC:3.2.1.24]
137021708  dnase2b; deoxyribonuclease-2-beta [KO:K01158] [EC:3.1.22.1]
137021790  [KO:K21398]
137021820  [KO:K21398]
137022753  arsa; arylsulfatase A isoform X1 [KO:K01134] [EC:3.1.6.8]
137022917  cltb; clathrin light chain B isoform X1 [KO:K04645]
137023121  dmxl2; dmX-like protein 2 isoform X1 [KO:K24155]
137023277  meak7; MTOR-associated protein MEAK7 isoform X1 [KO:K27947]
137023312  ctsd; cathepsin D [KO:K01379] [EC:3.4.23.5]
137023418  ctsh; pro-cathepsin H [KO:K01366] [EC:3.4.22.16]
137023438  ctsf; cathepsin F [KO:K01373] [EC:3.4.22.41]
137023731  naga; alpha-N-acetylgalactosaminidase [KO:K01204] [EC:3.2.1.49]
137024012  nots; nothepsin [KO:K01382] [EC:3.4.23.34]
137024219  gnsa; N-acetylglucosamine-6-sulfatase isoform X1 [KO:K01137] [EC:3.1.6.14]
137024336  [KO:K01444] [EC:3.5.1.26]
137024442  gnptab; N-acetylglucosamine-1-phosphotransferase subunits alpha/beta [KO:K08239] [EC:2.7.8.17]
137024498  si:dkey-159a18.1; sortilin [KO:K12388]
137024918  m6pr; cation-dependent mannose-6-phosphate receptor [KO:K10089]
137026451  si:dkey-72l14.3; glyco_hydro_56 domain-containing protein [KO:K01197] [EC:3.2.1.35]
137026519  hyal3; hyaluronidase-3 [KO:K01197] [EC:3.2.1.35]
137026765  dmxl1; dmX-like protein 1 isoform X1 [KO:K24155]
137026771  ap3s1; AP-3 complex subunit sigma-1 [KO:K12399]
137026790  cltcl1; clathrin heavy chain 1 isoform X1 [KO:K04646]
137027128  sort1b; sortilin 1b [KO:K12388]
137027344  entpd4; ectonucleoside triphosphate diphosphohydrolase 4 isoform X1 [KO:K12305] [EC:3.6.1.6]
137027475  atp6v0a2a; V-type proton ATPase 116 kDa subunit a 2 isoform X1 [KO:K02154]
137027703  cts12; digestive cysteine proteinase 2 [KO:K01365] [EC:3.4.22.15]
137027774  ap3d1; AP-3 complex subunit delta-1 isoform X1 [KO:K12396]
137027842  sgsh; N-sulphoglucosamine sulphohydrolase isoform X1 [KO:K01565] [EC:3.10.1.1]
137027854  hyal2b; hyaluronidase-2 isoform X1 [KO:K01197] [EC:3.2.1.35]
137028104  dnase2; deoxyribonuclease-2-alpha [KO:K01158] [EC:3.1.22.1]
137028541  gnsb; glucosamine (N-acetyl)-6-sulfatase (Sanfilippo disease IIID), b [KO:K01137] [EC:3.1.6.14]
137028716  cltca; clathrin, heavy chain a (Hc) isoform X1 [KO:K04646]
137028755  smpd1; sphingomyelin phosphodiesterase [KO:K12350] [EC:3.1.4.12]
137028778  ap4m1; AP-4 complex subunit mu-1 isoform X1 [KO:K12402]
137029003  mfsd8l1; major facilitator superfamily domain-containing protein 8 [KO:K12307]
137029009  lamp3; lysosome-associated membrane glycoprotein 3 [KO:K06562]
137029893  cd68; macrosialin [KO:K06501]
137030058  ap1g1; AP-1 complex subunit gamma-1 isoform X1 [KO:K12391]
137030112  galns; N-acetylgalactosamine-6-sulfatase [KO:K01132] [EC:3.1.6.4]
137030305  si:ch211-122f10.4; cathepsin A-like [KO:K13289] [EC:3.4.16.5]
137030416  atp6v0d1; V-type proton ATPase subunit d 1 [KO:K02146]
137030797  [KO:K01369] [EC:3.4.22.34]
137031070  ap1s1; AP-1 complex subunit sigma-1A isoform X1 [KO:K12394]
137031307  acp2; lysosomal acid phosphatase [KO:K14410] [EC:3.1.3.2]
137031466  [KO:K19363]
137031621  gba1; lysosomal acid glucosylceramidase isoform X1 [KO:K01201] [EC:3.2.1.45]
137031718  glb1; beta-galactosidase [KO:K12309] [EC:3.2.1.23]
137031758  lamp1a; lysosome-associated membrane glycoprotein 1a [KO:K06528]
137032022  mcoln1a; mucolipin-1a isoform X1 [KO:K04992]
137032211  hgsnat; heparan-alpha-glucosaminide N-acetyltransferase isoform X1 [KO:K10532] [EC:2.3.1.78]
137032240  si:ch211-202h22.8; lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog-like [KO:K19363]
137032304  tcirg1a; V-type proton ATPase 116 kDa subunit a 3 isoform X1 [KO:K02154]
137032509  gaa2; lysosomal alpha-glucosidase [KO:K12316] [EC:3.2.1.20]
137032624  clta; clathrin light chain A isoform X1 [KO:K04644]
137032702  nagpa; N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [KO:K01125] [EC:3.1.4.45]
137032823  si:ch211-202h22.9; lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [KO:K19363]
137033046  [KO:K19363]
137033179  asah1b; acid ceramidase [KO:K12348] [EC:3.5.1.23]
137033644  ap1b1; AP-1 complex subunit beta-1 isoform X1 [KO:K12392]
137033750  atp6v0a2b; V-type proton ATPase 116 kDa subunit a [KO:K02154]
137033819  hexb; beta-hexosaminidase subunit beta isoform X1 [KO:K12373] [EC:3.2.1.52]
137033826  scarb2a; lysosome membrane protein 2a [KO:K12384]
137033852  gusb; beta-glucuronidase isoform X1 [KO:K01195] [EC:3.2.1.31]
137033870  idua; alpha-L-iduronidase isoform X1 [KO:K01217] [EC:3.2.1.76]
137033896  abcb9; ATP-binding cassette sub-family B member 9 [KO:K05656]
137033913  abca2; ATP-binding cassette sub-family A member 2 isoform X1 [KO:K05642]
137034041  ap3m2; AP-3 complex subunit mu-2 [KO:K12398]
137034404  [KO:K01368] [EC:3.4.22.27]
137034423  [KO:K01368] [EC:3.4.22.27]
137034431  ctsk; cathepsin K [KO:K01371] [EC:3.4.22.38]
137035075  ctsla; cathepsin La [KO:K01365] [EC:3.4.22.15]
137035132  ctsll; cathepsin L, like isoform X1 [KO:K01365] [EC:3.4.22.15]
137036059  cln5; bis(monoacylglycero)phosphate synthase CLN5 [KO:K12390]
137036313  lamp1b; lysosome-associated membrane glycoprotein 1b [KO:K06528]
137037105  ppt2b; lysosomal thioesterase PPT2 isoform X1 [KO:K01074] [EC:3.1.2.22]
137037277  fuca1.2; alpha-L-fucosidase 1, tandem duplicate 2 [KO:K01206] [EC:3.2.1.51]
137037422  [KO:K01206] [EC:3.2.1.51]
137037448  neu1; sialidase-1 [KO:K01186] [EC:3.2.1.18]
137037578  si:ch1073-513e17.1; sialin [KO:K12301]
137037580  ppt1; palmitoyl-protein thioesterase 1 [KO:K01074] [EC:3.1.2.22]
137037707  laptm4b; lysosomal-associated transmembrane protein 4B [KO:K12387]
137037874  ctss1; cathepsin S, ortholog 1 isoform X1 [KO:K01368] [EC:3.4.22.27]
137037921  [KO:K01186] [EC:3.2.1.18]
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
cery00511  Other glycan degradation
cery00531  Glycosaminoglycan degradation
cery04130  SNARE interactions in vesicular transport
cery04140  Autophagy - animal
cery04144  Endocytosis
KO pathway
ko04142   

DBGET integrated database retrieval system