KEGG   PATHWAY: cmao04142
Entry
cmao04142                   Pathway                                
Name
Lysosome - Colossoma macropomum (tambaqui)
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
cmao04142  Lysosome
cmao04142

Other DBs
GO: 0005764
Organism
Colossoma macropomum (tambaqui) [GN:cmao]
Gene
118796720  npc1; NPC intracellular cholesterol transporter 1 [KO:K12385]
118796730  ppt2a.2; lysosomal thioesterase PPT2 [KO:K01074] [EC:3.1.2.22]
118797011  ap1m1; AP-1 complex subunit mu-1 [KO:K12393]
118797200  ap1s3b; AP-1 complex subunit sigma-3b [KO:K12395]
118797201  [KO:K01204] [EC:3.2.1.49]
118797262  [KO:K08568] [EC:3.4.18.1]
118797916  si:ch73-12o23.1; lysosomal alpha-glucosidase [KO:K12316] [EC:3.2.1.20]
118798100  si:dkeyp-75b4.8; lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog isoform X1 [KO:K19363]
118798112  [KO:K19363]
118798113  [KO:K19363]
118798122  lamp1a; lysosome-associated membrane glycoprotein 1a [KO:K06528]
118798160  [KO:K19363]
118798543  si:ch73-173p19.2; LOW QUALITY PROTEIN: V-type proton ATPase 116 kDa subunit a1 [KO:K02154]
118798902  dnase2; deoxyribonuclease-2-alpha [KO:K01158] [EC:3.1.22.1]
118799471  slc11a2; natural resistance-associated macrophage protein 2 isoform X1 [KO:K21398]
118799628  sort1a; sortilin [KO:K12388]
118799716  hyal2b; hyaluronidase-2 [KO:K01197] [EC:3.2.1.35]
118799777  cltcb; clathrin, heavy chain b (Hc) isoform X1 [KO:K04646]
118800432  atp6v0a1b; V-type proton ATPase 116 kDa subunit a isoform X1 [KO:K02154]
118800449  [KO:K12387]
118800560  ctsc; dipeptidyl peptidase 1 [KO:K01275] [EC:3.4.14.1]
118800856  cltca; clathrin, heavy chain a (Hc) isoform X1 [KO:K04646]
118800990  [KO:K01365] [EC:3.4.22.15]
118801267  cltb; clathrin light chain B isoform X1 [KO:K04645]
118801415  ctsh; pro-cathepsin H [KO:K01366] [EC:3.4.22.16]
118801514  sgsh; N-sulphoglucosamine sulphohydrolase [KO:K01565] [EC:3.10.1.1]
118802204  [KO:K01369] [EC:3.4.22.34]
118802902  [KO:K01369] [EC:3.4.22.34]
118802903  [KO:K01369] [EC:3.4.22.34]
118802905  [KO:K01369] [EC:3.4.22.34]
118802955  mcoln1a; mucolipin-1a [KO:K04992]
118803063  [KO:K21398]
118803181  ctsba; cathepsin B [KO:K01363] [EC:3.4.22.1]
118803224  [KO:K01444] [EC:3.5.1.26]
118803600  cln5; ceroid-lipofuscinosis neuronal protein 5 homolog [KO:K12390]
118803784  man2b1; lysosomal alpha-mannosidase isoform X1 [KO:K12311] [EC:3.2.1.24]
118803982  dmxl2; dmX-like protein 2 [KO:K24155]
118804208  glb1; beta-galactosidase [KO:K12309] [EC:3.2.1.23]
118804446  [KO:K12404]
118805313  mcoln1b; mucolipin-1b [KO:K04992]
118805330  gga3b; ADP-ribosylation factor-binding protein GGA3 [KO:K12404]
118805373  napsa; napsin-A [KO:K01379] [EC:3.4.23.5]
118805398  [KO:K01186] [EC:3.2.1.18]
118805399  [KO:K01186] [EC:3.2.1.18]
118805479  laptm4b; lysosomal-associated transmembrane protein 4B [KO:K12387]
118805492  fuca1.2; alpha-L-fucosidase 1, tandem duplicate 2 [KO:K01206] [EC:3.2.1.51]
118805626  si:ch1073-513e17.1; sialin [KO:K12301]
118805630  ppt1; palmitoyl-protein thioesterase 1 [KO:K01074] [EC:3.1.2.22]
118805749  litaf; lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [KO:K19363]
118805775  snrnp25; U11/U12 small nuclear ribonucleoprotein 25 kDa protein isoform X1 [KO:K19363]
118806578  ap3s2; AP-3 complex subunit sigma-2 [KO:K12399]
118806598  pla2g15; group XV phospholipase A2 [KO:K06129] [EC:3.1.1.5]
118806838  ctsf; cathepsin F [KO:K01373] [EC:3.4.22.41]
118806868  [KO:K12383]
118806945  asah1a; N-acylsphingosine amidohydrolase (acid ceramidase) 1a [KO:K12348] [EC:3.5.1.23]
118807063  ids; iduronate 2-sulfatase [KO:K01136] [EC:3.1.6.13]
118807299  aga; N(4)-(beta-N-acetylglucosaminyl)-L-asparaginase [KO:K01444] [EC:3.5.1.26]
118807302  ctso; cathepsin O [KO:K01374] [EC:3.4.22.42]
118807316  tcirg1b; T cell immune regulator 1, ATPase H+ transporting V0 subunit a3b isoform X1 [KO:K02154]
118807907  ap1m2; AP-1 complex subunit mu-2 [KO:K12393]
118807921  gga1; ADP-ribosylation factor-binding protein GGA1 [KO:K12404]
118808136  gga3a; ADP-ribosylation factor-binding protein GGA3a isoform X1 [KO:K12404]
118808179  ap1m3; adaptor related protein complex 1 subunit mu 3 [KO:K12393]
118808276  sumf1; formylglycine-generating enzyme isoform X1 [KO:K13444] [EC:1.8.3.7]
118808512  ctsa; lysosomal protective protein [KO:K13289] [EC:3.4.16.5]
118808549  hyal2a; hyaluronidase-2 [KO:K01197] [EC:3.2.1.35]
118808551  hyal1; hyaluronidase-1 [KO:K01197] [EC:3.2.1.35]
118808665  acp5a; tartrate-resistant acid phosphatase type 5a isoform X1 [KO:K14379] [EC:3.1.3.2]
118808735  ctsz; cathepsin Z [KO:K08568] [EC:3.4.18.1]
118808874  [KO:K01052] [EC:3.1.1.13]
118808943  [KO:K01369] [EC:3.4.22.34]
118808944  [KO:K01369] [EC:3.4.22.34]
118809223  mfsd8; major facilitator superfamily domain-containing protein 8 [KO:K12307]
118809482  arsg; arylsulfatase G isoform X1 [KO:K12381] [EC:3.1.6.-]
118809573  lipf; gastric triacylglycerol lipase [KO:K01052] [EC:3.1.1.13]
118809617  [KO:K19363]
118810167  [KO:K12382]
118810249  manba; LOW QUALITY PROTEIN: beta-mannosidase [KO:K01192] [EC:3.2.1.25]
118810489  slc17a5; sialin [KO:K12301]
118810503  si:dkey-192p21.6; heparan-alpha-glucosaminide N-acetyltransferase [KO:K10532] [EC:2.3.1.78]
118810535  tcirg1a; V-type proton ATPase 116 kDa subunit a3 isoform X1 [KO:K02154]
118810695  zgc:153169; N(4)-(Beta-N-acetylglucosaminyl)-L-asparaginase [KO:K01444] [EC:3.5.1.26]
118810715  ap3m1; AP-3 complex subunit mu-1 [KO:K12398]
118811043  lgmn; legumain [KO:K01369] [EC:3.4.22.34]
118811259  [KO:K01197] [EC:3.2.1.35]
118811653  hexa; beta-hexosaminidase subunit alpha isoform X1 [KO:K12373] [EC:3.2.1.52]
118811726  [KO:K01197] [EC:3.2.1.35]
118811727  [KO:K01197] [EC:3.2.1.35]
118811728  [KO:K01197] [EC:3.2.1.35]
118811904  ap4e1; AP-4 complex subunit epsilon-1 isoform X1 [KO:K12400]
118811952  [KO:K12397]
118812021  gnptab; N-acetylglucosamine-1-phosphotransferase subunits alpha/beta [KO:K08239] [EC:2.7.8.17]
118812034  ppt2b; lysosomal thioesterase PPT2 [KO:K01074] [EC:3.1.2.22]
118812070  si:dkey-159a18.1; sortilin isoform X1 [KO:K12388]
118812294  naga; alpha-N-acetylgalactosaminidase [KO:K01204] [EC:3.2.1.49]
118812424  nots; nothepsin [KO:K01382] [EC:3.4.23.34]
118812430  gnsa; LOW QUALITY PROTEIN: N-acetylglucosamine-6-sulfatase [KO:K01137] [EC:3.1.6.14]
118812718  [KO:K01197] [EC:3.2.1.35]
118812719  [KO:K01197] [EC:3.2.1.35]
118812790  ctss1; cathepsin S, ortholog 1 [KO:K01371] [EC:3.4.22.38]
118812945  si:dkey-72l14.3; glyco_hydro_56 domain-containing protein [KO:K01197] [EC:3.2.1.35]
118813241  ap3s1; AP-3 complex subunit sigma-1 isoform X1 [KO:K12399]
118813243  dmxl1; dmX-like protein 1 isoform X1 [KO:K24155]
118813291  entpd4; ectonucleoside triphosphate diphosphohydrolase 4 isoform X1 [KO:K12305] [EC:3.6.1.6]
118813515  cltcl1; clathrin heavy chain 1 isoform X1 [KO:K04646]
118813668  hyal3; hyaluronidase-3 [KO:K01197] [EC:3.2.1.35]
118813782  sort1b; sortilin 1b isoform X1 [KO:K12388]
118814367  hexb; beta-hexosaminidase subunit beta isoform X1 [KO:K12373] [EC:3.2.1.52]
118814752  gusb; beta-glucuronidase [KO:K01195] [EC:3.2.1.31]
118814794  atp6v0cb; LOW QUALITY PROTEIN: ATPase H+ transporting V0 subunit cb [KO:K02155]
118814990  si:ch211-122f10.4; cathepsin A-like [KO:K13289] [EC:3.4.16.5]
118814996  [KO:K01365] [EC:3.4.22.15]
118815184  lamp1b; lysosome-associated membrane glycoprotein 1b [KO:K06528]
118815719  laptm4a; lysosomal-associated transmembrane protein 4A [KO:K12387]
118815740  igf2r; LOW QUALITY PROTEIN: cation-independent mannose-6-phosphate receptor [KO:K06564]
118815785  galca; LOW QUALITY PROTEIN: galactocerebrosidase [KO:K01202] [EC:3.2.1.46]
118815878  [KO:K25442]
118815880  ctsbb; cathepsin Bb [KO:K01363] [EC:3.4.22.1]
118815896  cd164; sialomucin core protein 24 [KO:K06546]
118816948  asah1b; LOW QUALITY PROTEIN: N-acylsphingosine amidohydrolase (acid ceramidase) 1b [KO:K12348] [EC:3.5.1.23]
118816984  clta; clathrin light chain A isoform X1 [KO:K04644]
118817023  hgsnat; LOW QUALITY PROTEIN: heparan-alpha-glucosaminide N-acetyltransferase [KO:K10532] [EC:2.3.1.78]
118817357  acp2; lysosomal acid phosphatase [KO:K14410] [EC:3.1.3.2]
118817454  atp6v0d1; V-type proton ATPase subunit d 1 [KO:K02146]
118817493  ctsk; cathepsin K [KO:K01371] [EC:3.4.22.38]
118817502  ctss2.1; cathepsin S, ortholog2, tandem duplicate 1 [KO:K01368] [EC:3.4.22.27]
118817604  galns; LOW QUALITY PROTEIN: N-acetylgalactosamine-6-sulfatase [KO:K01132] [EC:3.1.6.4]
118817746  ctsd; cathepsin D [KO:K01379] [EC:3.4.23.5]
118817864  m6pr; cation-dependent mannose-6-phosphate receptor [KO:K10089]
118818170  meak7; MTOR-associated protein MEAK7 [KO:K27947]
118818303  arsa; arylsulfatase A [KO:K01134] [EC:3.1.6.8]
118818546  acp5b; tartrate-resistant acid phosphatase type 5b [KO:K14379] [EC:3.1.3.2]
118818859  ap1s2; AP-1 complex subunit sigma-2 [KO:K12394]
118818887  cts12; cathepsin L1 [KO:K01365] [EC:3.4.22.15]
118818897  ctns; cystinosin [KO:K12386]
118819135  ap3d1; AP-3 complex subunit delta-1 isoform X1 [KO:K12396]
118819270  [KO:K01365] [EC:3.4.22.15]
118819498  dnase2b; deoxyribonuclease-2-beta [KO:K01158] [EC:3.1.22.1]
118819500  [KO:K06562]
118819516  ap1g1; AP-1 complex subunit gamma-1 isoform X1 [KO:K12391]
118819554  mfsd8l1; major facilitator superfamily domain-containing protein 8 [KO:K12307]
118819701  [KO:K24738]
118819730  ap3b1a; AP-3 complex subunit beta-1 isoform X1 [KO:K12397]
118819828  scarb2b; lysosome membrane protein 2 [KO:K12384]
118819909  [KO:K01135] [EC:3.1.6.12]
118819913  [KO:K01365] [EC:3.4.22.15]
118819914  [KO:K01365] [EC:3.4.22.15]
118819915  [KO:K01365] [EC:3.4.22.15]
118819916  [KO:K01365] [EC:3.4.22.15]
118820365  scarb2c; lysosome membrane protein 2c [KO:K12384]
118821197  atp6v0ca; ATPase H+ transporting V0 subunit ca [KO:K02155]
118821504  [KO:K19363]
118821616  gaa; lysosomal alpha-glucosidase [KO:K12316] [EC:3.2.1.20]
118821628  cln3; battenin isoform X1 [KO:K12389]
118821667  nagpa; N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [KO:K01125] [EC:3.1.4.45]
118821847  atp6v0a1a; V-type proton ATPase 116 kDa subunit a isoform X1 [KO:K02154]
118821957  cd63; CD63 antigen [KO:K06497]
118822001  [KO:K12394]
118822155  ap4b1; AP-4 complex subunit beta-1 [KO:K12401]
118822343  atp6ap1b; V-type proton ATPase subunit S1b [KO:K03662]
118822349  gnptg; N-acetylglucosamine-1-phosphotransferase subunit gamma isoform X1 [KO:K10087]
118822621  naglu; alpha-N-acetylglucosaminidase [KO:K01205] [EC:3.2.1.50]
118822770  atp6ap1a; ATPase H+ transporting accessory protein 1a [KO:K03662]
118823250  [KO:K13443]
118823253  [KO:K13443]
118823325  si:ch211-15d5.11; LOW QUALITY PROTEIN: oxidation resistance protein 1 [KO:K25442]
118823404  ap4s1; AP-4 complex subunit sigma-1 [KO:K12403]
118823457  galcb; galactocerebrosidase isoform X1 [KO:K01202] [EC:3.2.1.46]
118823512  tpp1; tripeptidyl-peptidase 1 [KO:K01279] [EC:3.4.14.9]
118823535  [KO:K01365] [EC:3.4.22.15]
118823536  [KO:K01365] [EC:3.4.22.15]
118823537  [KO:K01365] [EC:3.4.22.15]
118823538  [KO:K01365] [EC:3.4.22.15]
118823540  [KO:K01365] [EC:3.4.22.15]
118823541  [KO:K01365] [EC:3.4.22.15]
118823542  [KO:K01365] [EC:3.4.22.15]
118823544  [KO:K01365] [EC:3.4.22.15]
118823545  [KO:K01365] [EC:3.4.22.15]
118823547  [KO:K01365] [EC:3.4.22.15]
118823548  [KO:K01365] [EC:3.4.22.15]
118823549  [KO:K01365] [EC:3.4.22.15]
118823550  [KO:K01365] [EC:3.4.22.15]
118823551  [KO:K01365] [EC:3.4.22.15]
118823554  [KO:K01365] [EC:3.4.22.15]
118823556  [KO:K01365] [EC:3.4.22.15]
118823557  [KO:K01365] [EC:3.4.22.15]
118823558  [KO:K01365] [EC:3.4.22.15]
118823559  [KO:K01365] [EC:3.4.22.15]
118823560  [KO:K01365] [EC:3.4.22.15]
118823569  [KO:K01365] [EC:3.4.22.15]
118823820  fuca2; plasma alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]
118823866  [KO:K01365] [EC:3.4.22.15]
118824290  smpd1; sphingomyelin phosphodiesterase [KO:K12350] [EC:3.1.4.12]
118824429  ap4m1; AP-4 complex subunit mu-1 [KO:K12402]
118824463  gnsb; glucosamine (N-acetyl)-6-sulfatase (Sanfilippo disease IIID), b [KO:K01137] [EC:3.1.6.14]
118824963  atp6v0a2a; V-type proton ATPase 116 kDa subunit a2 isoform X1 [KO:K02154]
118825446  gba; lysosomal acid glucosylceramidase [KO:K01201] [EC:3.2.1.45]
118825563  ap1s1; AP-1 complex subunit sigma-1A [KO:K12394]
118825603  atp6v1h; V-type proton ATPase subunit H isoform X1 [KO:K02144]
118825710  ap1g2; AP-1 complex subunit gamma-like 2 [KO:K12391]
118825743  atp6v0b; V-type proton ATPase 21 kDa proteolipid subunit [KO:K03661]
118825811  si:ch211-212k18.7; macrosialin isoform X1 [KO:K06562]
118826205  mfsd8l2; major facilitator superfamily domain-containing protein 8 [KO:K12307]
118826967  idua; alpha-L-iduronidase [KO:K01217] [EC:3.2.1.76]
118827141  abcb9; ATP-binding cassette sub-family B member 9 [KO:K05656]
118827179  abca2; ATP-binding cassette sub-family A member 2 isoform X1 [KO:K05642]
118827199  atp6v0a2b; LOW QUALITY PROTEIN: V-type proton ATPase 116 kDa subunit a [KO:K02154]
118827279  ap1b1; AP-1 complex subunit beta-1 isoform X1 [KO:K12392]
118827486  [KO:K01197] [EC:3.2.1.35]
118827506  ap3m2; AP-3 complex subunit mu-2 [KO:K12398]
118827549  ctsla; cathepsin La [KO:K01365] [EC:3.4.22.15]
118827597  scarb2a; lysosome membrane protein 2a isoform X1 [KO:K12384]
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
cmao00511  Other glycan degradation
cmao00531  Glycosaminoglycan degradation
cmao04130  SNARE interactions in vesicular transport
cmao04140  Autophagy - animal
cmao04144  Endocytosis
KO pathway
ko04142   

DBGET integrated database retrieval system