KEGG   PATHWAY: cgob04142
Entry
cgob04142                   Pathway                                
Name
Lysosome biogenesis - Cottoperca gobio
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
cgob04142  Lysosome biogenesis
cgob04142

Other DBs
GO: 0005764
Organism
Cottoperca gobio [GN:cgob]
Gene
115003441  cd164; sialomucin core protein 24 isoform X1 [KO:K06546]
115003533  [KO:K01363] [EC:3.4.22.1]
115003646  atp6v1d; V-type proton ATPase subunit D [KO:K02149]
115003747  [KO:K25442]
115003754  vps18; vacuolar protein sorting-associated protein 18 homolog [KO:K20181]
115003809  laptm4a; lysosomal-associated transmembrane protein 4A [KO:K12387]
115003887  igf2r; cation-independent mannose-6-phosphate receptor [KO:K06564]
115004066  [KO:K01204] [EC:3.2.1.49]
115004777  atp6v1f; V-type proton ATPase subunit F [KO:K02151]
115004778  lamtor4; ragulator complex protein LAMTOR4 [KO:K20399]
115004911  [KO:K12394]
115004916  [KO:K12394]
115005227  [KO:K01363] [EC:3.4.22.1]
115005269  [KO:K01197] [EC:3.2.1.35]
115005270  [KO:K01197] [EC:3.2.1.35]
115005271  [KO:K01197] [EC:3.2.1.35]
115005330  vps26a; vacuolar protein sorting-associated protein 26A [KO:K18466]
115005361  vps16; vacuolar protein sorting-associated protein 16 homolog [KO:K20180]
115005461  galns; LOW QUALITY PROTEIN: N-acetylgalactosamine-6-sulfatase [KO:K01132] [EC:3.1.6.4]
115005505  [KO:K02153]
115005506  man2b1; lysosomal alpha-mannosidase [KO:K12311] [EC:3.2.1.24]
115005751  [KO:K19525]
115005988  [KO:K01382] [EC:3.4.23.34]
115005990  [KO:K01382] [EC:3.4.23.34]
115006114  fuca2; plasma alpha-L-fucosidase isoform X1 [KO:K01206] [EC:3.2.1.51]
115006470  ap3s2; AP-3 complex subunit sigma-2 [KO:K12399]
115006481  ap1g1; AP-1 complex subunit gamma-1 isoform X1 [KO:K12391]
115006621  [KO:K01158] [EC:3.1.22.1]
115006637  bloc1s2; biogenesis of lysosome-related organelles complex 1 subunit 2 [KO:K16750]
115006644  [KO:K01158] [EC:3.1.22.1]
115006663  [KO:K12307]
115006813  mcoln2; mucolipin-2 isoform X1 [KO:K04993]
115006887  [KO:K04994]
115006895  borcs8; BLOC-1-related complex subunit 8 isoform X1 [KO:K20822]
115006908  ctbs; di-N-acetylchitobiase isoform X1 [KO:K12310] [EC:3.2.1.-]
115007158  ctns; cystinosin [KO:K12386]
115007308  lamp3; lysosome-associated membrane glycoprotein 3 isoform X1 [KO:K06562]
115007342  ap3d1; AP-3 complex subunit delta-1 isoform X1 [KO:K12396]
115007450  [KO:K20174]
115007498  [KO:K12393]
115007835  [KO:K07897] [EC:3.6.5.2]
115007890  sgsh; N-sulphoglucosamine sulphohydrolase [KO:K01565] [EC:3.10.1.1]
115007990  [KO:K20402]
115007999  [KO:K09455]
115008092  tfe3; transcription factor E3 isoform X1 [KO:K09105]
115008095  tfeb; transcription factor EB isoform X1 [KO:K15590]
115008134  bloc1s1; biogenesis of lysosome-related organelles complex 1 subunit 1 [KO:K20185]
115008151  [KO:K21398]
115008215  [KO:K01197] [EC:3.2.1.35]
115008291  [KO:K01197] [EC:3.2.1.35]
115008380  [KO:K12388]
115008505  ap5b1; AP-5 complex subunit beta-1 [KO:K19022]
115008539  arl8b; ADP-ribosylation factor-like protein 8B [KO:K07955]
115008545  ctsz; cathepsin Z [KO:K08568] [EC:3.4.18.1]
115008553  [KO:K07897] [EC:3.6.5.2]
115008681  [KO:K07955]
115008730  [KO:K07897] [EC:3.6.5.2]
115008750  hyal2; hyaluronidase-2 [KO:K01197] [EC:3.2.1.35]
115008888  [KO:K20189]
115008916  sumf1; formylglycine-generating enzyme isoform X1 [KO:K13444] [EC:1.8.3.7]
115008953  asah1; LOW QUALITY PROTEIN: acid ceramidase [KO:K12348] [EC:3.5.1.23]
115009142  meak7; MTOR-associated protein MEAK7 [KO:K27947]
115009160  kxd1; kxDL motif-containing protein 1 [KO:K20818]
115009164  [KO:K02150]
115009222  [KO:K01197] [EC:3.2.1.35]
115009415  arsa; arylsulfatase A [KO:K01134] [EC:3.1.6.8]
115009420  [KO:K04992]
115009453  spg11; LOW QUALITY PROTEIN: spatacsin [KO:K19026]
115009498  ap3b2; AP-3 complex subunit beta-2 isoform X1 [KO:K12397]
115009530  [KO:K20456]
115009650  ap4e1; AP-4 complex subunit epsilon-1 [KO:K12400]
115009694  borcs5; BLOC-1-related complex subunit 5 [KO:K20819]
115009720  [KO:K01366] [EC:3.4.22.16]
115009765  [KO:K15014]
115009829  [KO:K20464]
115010050  hexa; beta-hexosaminidase subunit alpha isoform X1 [KO:K12373] [EC:3.2.1.52]
115010224  clta; clathrin light chain A isoform X1 [KO:K04644]
115010299  pla2g15; group XV phospholipase A2 [KO:K06129] [EC:3.1.1.5]
115010393  lamtor5; ragulator complex protein LAMTOR5 [KO:K16344]
115010419  [KO:K20189]
115010424  [KO:K01197] [EC:3.2.1.35]
115010468  [KO:K01197] [EC:3.2.1.35]
115010469  borcs6; LOW QUALITY PROTEIN: BLOC-1-related complex subunit 6 [KO:K20820]
115010594  ap4b1; AP-4 complex subunit beta-1 [KO:K12401]
115010618  [KO:K15014]
115010675  mtor; serine/threonine-protein kinase mTOR isoform X1 [KO:K07203] [EC:2.7.11.1]
115010697  mitf; LOW QUALITY PROTEIN: microphthalmia-associated transcription factor [KO:K09455]
115010799  [KO:K03662]
115010827  [KO:K07955]
115010888  [KO:K12388]
115011076  [KO:K05404]
115011129  tti1; TELO2-interacting protein 1 homolog isoform X1 [KO:K20403]
115011388  [KO:K21398]
115011465  [KO:K03662]
115011581  acp5; tartrate-resistant acid phosphatase type 5 isoform X1 [KO:K14379] [EC:3.1.3.2]
115011822  ap2a1; AP-2 complex subunit alpha-1 isoform X1 [KO:K11824]
115011960  gga3; ADP-ribosylation factor-binding protein GGA3 [KO:K12404]
115012265  gga1; ADP-ribosylation factor-binding protein GGA1 [KO:K12404]
115012300  [KO:K02154]
115012354  [KO:K04992]
115012386  cln3; battenin isoform X1 [KO:K12389]
115012542  [KO:K02155]
115012592  [KO:K12316] [EC:3.2.1.20]
115012600  [KO:K12404]
115012654  akt1s1; proline-rich AKT1 substrate 1 [KO:K16184]
115012696  rogdi; protein rogdi homolog [KO:K24628]
115012719  ap5z1; AP-5 complex subunit zeta-1 isoform X1 [KO:K19025]
115012740  [KO:K01379] [EC:3.4.23.5]
115012786  slc2a6; LOW QUALITY PROTEIN: solute carrier family 2, facilitated glucose transporter member 6 [KO:K08144]
115012795  [KO:K20463]
115012953  idua; alpha-L-iduronidase [KO:K01217] [EC:3.2.1.76]
115012974  dmxl1; dmX-like protein 1 isoform X1 [KO:K24155]
115013064  snap29; LOW QUALITY PROTEIN: synaptosomal-associated protein 29 [KO:K08509]
115013065  ap1b1; AP-1 complex subunit beta-1 isoform X1 [KO:K12392]
115013094  [KO:K12384]
115013130  vps33a; vacuolar protein sorting-associated protein 33A [KO:K20182]
115013153  slc15a4; solute carrier family 15 member 4 [KO:K14638]
115013168  vps13a; LOW QUALITY PROTEIN: vacuolar protein sorting-associated protein 13A [KO:K19525]
115013192  [KO:K04646]
115013211  tpcn1; two pore calcium channel protein 1 isoform X1 [KO:K16896]
115013262  [KO:K01365] [EC:3.4.22.15]
115013384  entpd4; ectonucleoside triphosphate diphosphohydrolase 4 isoform X1 [KO:K12305] [EC:3.6.1.6]
115013455  tmem175; endosomal/lysosomal potassium channel TMEM175 [KO:K24915]
115013471  [KO:K12382]
115013633  atp6v0a2; LOW QUALITY PROTEIN: V-type proton ATPase 116 kDa subunit a [KO:K02154]
115013663  ap3s1; AP-3 complex subunit sigma-1 isoform X1 [KO:K12399]
115013753  abca2; LOW QUALITY PROTEIN: ATP-binding cassette sub-family A member 2 [KO:K05642]
115013893  [KO:K12398]
115013936  vamp8; vesicle-associated membrane protein 8 [KO:K08512]
115014018  abcb9; ATP-binding cassette sub-family B member 9 [KO:K05656]
115014206  gm2a; ganglioside GM2 activator [KO:K12383]
115014308  aga; N(4)-(beta-N-acetylglucosaminyl)-L-asparaginase [KO:K01444] [EC:3.5.1.26]
115014309  ctso; LOW QUALITY PROTEIN: cathepsin O [KO:K01374] [EC:3.4.22.42]
115014322  cltb; clathrin light chain B isoform X1 [KO:K04645]
115014395  lamp2; lysosome-associated membrane glycoprotein 2 isoform X1 [KO:K06528]
115014473  [KO:K14209]
115014474  [KO:K02154]
115014640  gla; alpha-galactosidase A [KO:K01189] [EC:3.2.1.22]
115014646  vamp7; vesicle-associated membrane protein 7 isoform X1 [KO:K08515]
115014870  tlr3; toll-like receptor 3 isoform X1 [KO:K05401]
115014875  atp6v0e1; V-type proton ATPase subunit e 1 [KO:K02153]
115014945  [KO:K01373] [EC:3.4.22.41]
115014997  ids; iduronate 2-sulfatase [KO:K01136] [EC:3.1.6.13]
115015167  hgsnat; LOW QUALITY PROTEIN: heparan-alpha-glucosaminide N-acetyltransferase [KO:K10532] [EC:2.3.1.78]
115015218  ap1m2; AP-1 complex subunit mu-2 [KO:K12393]
115015332  bloc1s4; biogenesis of lysosome-related organelles complex 1 subunit 4 [KO:K08366]
115015335  [KO:K19363]
115015342  [KO:K16186]
115015343  ppt1; palmitoyl-protein thioesterase 1 isoform X1 [KO:K01074] [EC:3.1.2.22]
115015369  snapin; SNARE-associated protein Snapin [KO:K20002]
115015396  dtnbp1; dysbindin isoform X1 [KO:K20189]
115015463  neu1; sialidase-1 [KO:K01186] [EC:3.2.1.18]
115015466  [KO:K01074] [EC:3.1.2.22]
115015520  glb1; beta-galactosidase [KO:K12309] [EC:3.2.1.23]
115015560  [KO:K01206] [EC:3.2.1.51]
115015607  [KO:K01371] [EC:3.4.22.38]
115015608  [KO:K01368] [EC:3.4.22.27]
115015737  [KO:K20463]
115015854  [KO:K12301]
115015914  [KO:K12387]
115015976  [KO:K01158] [EC:3.1.22.1]
115016024  [KO:K01206] [EC:3.2.1.51]
115016109  [KO:K01206] [EC:3.2.1.51]
115016161  [KO:K01206] [EC:3.2.1.51]
115016235  [KO:K02148]
115016356  arsb; arylsulfatase B [KO:K01135] [EC:3.1.6.12]
115016478  [KO:K01137] [EC:3.1.6.14]
115016485  wdr7; WD repeat-containing protein 7 isoform X1 [KO:K24738]
115016600  ap3b1; AP-3 complex subunit beta-1 isoform X1 [KO:K12397]
115016639  hexb; beta-hexosaminidase subunit beta isoform X1 [KO:K12373] [EC:3.2.1.52]
115016701  [KO:K12384]
115016810  rptor; regulatory-associated protein of mTOR isoform X1 [KO:K07204]
115016909  [KO:K12384]
115017066  [KO:K02154]
115017085  slc38a9; sodium-coupled neutral amino acid transporter 9 [KO:K14995]
115017238  [KO:K08512]
115017313  [KO:K04646]
115017407  lamtor1; ragulator complex protein LAMTOR1 [KO:K20397]
115017446  vps26b; vacuolar protein sorting-associated protein 26B [KO:K18466]
115017575  ap2s1; AP-2 complex subunit sigma [KO:K11827]
115018121  [KO:K12395]
115018133  bloc1s3; biogenesis of lysosome-related organelles complex 1 subunit 3 [KO:K20186]
115018207  [KO:K11826]
115018232  ctsc; dipeptidyl peptidase 1 [KO:K01275] [EC:3.4.14.1]
115018510  vps11; LOW QUALITY PROTEIN: vacuolar protein sorting-associated protein 11 homolog [KO:K20179]
115018588  ap4m1; LOW QUALITY PROTEIN: AP-4 complex subunit mu-1 [KO:K12402]
115018642  smpd1; sphingomyelin phosphodiesterase [KO:K12350] [EC:3.1.4.12]
115018699  [KO:K11825]
115018872  [KO:K16185]
115018997  [KO:K18466]
115019245  [KO:K02145] [EC:7.1.2.2]
115019304  gusb; beta-glucuronidase [KO:K01195] [EC:3.2.1.31]
115019469  cltc; clathrin heavy chain 1 isoform X1 [KO:K04646]
115019715  [KO:K15014]
115019826  [KO:K02147]
115019894  slc17a5; sialin [KO:K12301]
115019925  borcs7; BLOC-1-related complex subunit 7 [KO:K20821]
115019953  [KO:K12398]
115020240  [KO:K10532] [EC:2.3.1.78]
115020460  [KO:K28455]
115020915  m6pr; cation-dependent mannose-6-phosphate receptor [KO:K10089]
115020952  lamtor2; ragulator complex protein LAMTOR2 [KO:K20398]
115020960  [KO:K01125] [EC:3.1.4.45]
115021042  dnase2; deoxyribonuclease-2-alpha isoform X1 [KO:K01158] [EC:3.1.22.1]
115021107  stx17; syntaxin-17 [KO:K08491]
115021168  [KO:K01074] [EC:3.1.2.22]
115021387  [KO:K01204] [EC:3.2.1.49]
115021390  [KO:K20189]
115021408  [KO:K01125] [EC:3.1.4.45]
115021538  acp2; lysosomal acid phosphatase [KO:K14410] [EC:3.1.3.2]
115021546  gba; lysosomal acid glucosylceramidase [KO:K01201] [EC:3.2.1.45]
115021643  osbpl3; oxysterol-binding protein-related protein 3 isoform X1 [KO:K20463]
115021677  [KO:K01368] [EC:3.4.22.27]
115021678  [KO:K01371] [EC:3.4.22.38]
115021688  rragc; ras-related GTP-binding protein C [KO:K16186]
115021717  deptor; DEP domain-containing mTOR-interacting protein isoform X1 [KO:K20402]
115021795  [KO:K02148]
115021830  laptm4b; lysosomal-associated transmembrane protein 4B [KO:K12387]
115021972  [KO:K20174]
115022181  [KO:K12394]
115022367  atp6v1h; V-type proton ATPase subunit H isoform X1 [KO:K02144]
115022407  [KO:K12391]
115022559  [KO:K11826]
115022593  [KO:K08568] [EC:3.4.18.1]
115022762  ap1m1; AP-1 complex subunit mu-1 isoform X1 [KO:K12393]
115022797  [KO:K12307]
115022805  atp6v0b; V-type proton ATPase 21 kDa proteolipid subunit [KO:K03661]
115022914  npc1; NPC intracellular cholesterol transporter 1 [KO:K12385]
115022943  [KO:K02146]
115023097  [KO:K04994]
115023734  [KO:K12404]
115023819  cln6; ceroid-lipofuscinosis neuronal protein 6 [KO:K12359]
115023864  [KO:K20456]
115023892  [KO:K15014]
115023912  [KO:K12394]
115023988  [KO:K06501]
115024070  mfsd8; major facilitator superfamily domain-containing protein 8 isoform X1 [KO:K12307]
115024165  telo2; LOW QUALITY PROTEIN: telomere length regulation protein TEL2 homolog [KO:K11137]
115024335  gnptg; N-acetylglucosamine-1-phosphotransferase subunit gamma isoform X1 [KO:K10087]
115024411  mlst8; target of rapamycin complex subunit LST8 isoform X1 [KO:K08266]
115024415  arsg; arylsulfatase G [KO:K12381] [EC:3.1.6.-]
115024533  naglu; LOW QUALITY PROTEIN: alpha-N-acetylglucosaminidase [KO:K01205] [EC:3.2.1.50]
115024542  dmxl2; LOW QUALITY PROTEIN: dmX-like protein 2 [KO:K24155]
115024544  osbpl7; oxysterol-binding protein-related protein 7 isoform X1 [KO:K20463]
115024552  [KO:K02154]
115024583  [KO:K02155]
115024695  lamp1; lysosome-associated membrane glycoprotein 1 [KO:K06528]
115024761  tpcn2; LOW QUALITY PROTEIN: two pore calcium channel protein 2 [KO:K14077]
115024835  [KO:K01379] [EC:3.4.23.5]
115024852  [KO:K06497]
115024928  plekhm1; LOW QUALITY PROTEIN: pleckstrin homology domain-containing family M member 1 [KO:K23282]
115024929  ctsa; LOW QUALITY PROTEIN: lysosomal protective protein [KO:K13289] [EC:3.4.16.5]
115024968  [KO:K02146]
115025119  [KO:K01366] [EC:3.4.22.16]
115025133  [KO:K05648]
115025374  atp6v1a; V-type proton ATPase catalytic subunit A [KO:K02145] [EC:7.1.2.2]
115025441  vps41; vacuolar protein sorting-associated protein 41 homolog isoform X1 [KO:K20184]
115025501  bloc1s5; biogenesis of lysosome-related organelles complex 1 subunit 5 [KO:K20187]
115025559  [KO:K14379] [EC:3.1.3.2]
115025643  [KO:K12316] [EC:3.2.1.20]
115026000  gpr155; integral membrane protein GPR155 isoform X1 [KO:K28455]
115026199  osbpl6; LOW QUALITY PROTEIN: oxysterol-binding protein-related protein 6 [KO:K20463]
115026274  bloc1s6; biogenesis of lysosome-related organelles complex 1 subunit 6 [KO:K20188]
115026313  cln5; ceroid-lipofuscinosis neuronal protein 5 [KO:K12390]
115026392  pikfyve; LOW QUALITY PROTEIN: 1-phosphatidylinositol 3-phosphate 5-kinase [KO:K00921] [EC:2.7.1.150]
115026446  [KO:K12394]
115026585  [KO:K05404]
115026586  [KO:K10170]
115026701  [KO:K06528]
115026962  manba; beta-mannosidase [KO:K01192] [EC:3.2.1.25]
115027003  zfyve26; LOW QUALITY PROTEIN: zinc finger FYVE domain-containing protein 26 [KO:K19027]
115027040  ap4s1; AP-4 complex subunit sigma-1 [KO:K12403]
115027091  ap5m1; AP-5 complex subunit mu-1 [KO:K19023]
115027104  cln8; protein CLN8 [KO:K12360]
115027150  galc; galactocerebrosidase isoform X1 [KO:K01202] [EC:3.2.1.46]
115027163  [KO:K12404]
115027181  [KO:K01365] [EC:3.4.22.15]
115027211  npc2; NPC intracellular cholesterol transporter 2 [KO:K13443]
115027224  tpp1; tripeptidyl-peptidase 1 [KO:K01279] [EC:3.4.14.9]
115027253  [KO:K25442]
115027354  [KO:K16186]
115027385  ap5s1; LOW QUALITY PROTEIN: AP-5 complex subunit sigma-1 [KO:K19024]
115027405  [KO:K02148]
115027438  lamtor3; ragulator complex protein LAMTOR3 [KO:K04370]
115027678  vps39; vam6/Vps39-like protein [KO:K20183]
115027782  lgmn; legumain [KO:K01369] [EC:3.4.22.34]
115027802  vps29; vacuolar protein sorting-associated protein 29 isoform X1 [KO:K18467]
115028236  gns; N-acetylglucosamine-6-sulfatase [KO:K01137] [EC:3.1.6.14]
115028317  [KO:K12388]
115028411  [KO:K02150]
115028491  [KO:K01197] [EC:3.2.1.35]
115028529  gnptab; N-acetylglucosamine-1-phosphotransferase subunits alpha/beta [KO:K08239] [EC:2.7.8.17]
115028763  ostm1; osteopetrosis-associated transmembrane protein 1 [KO:K23863]
115028797  lamp5; lysosome-associated membrane glycoprotein 5 [KO:K28774]
115028817  fig4; polyphosphoinositide phosphatase [KO:K22913] [EC:3.1.3.-]
115028822  vps35; vacuolar protein sorting-associated protein 35 [KO:K18468]
115028946  [KO:K11824]
Compound
C00002  ATP
C00008  ADP
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)
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Related
pathway
cgob00511  Other glycan degradation
cgob00531  Glycosaminoglycan degradation
cgob04130  SNARE interactions in vesicular transport
cgob04140  Autophagy - animal
cgob04144  Endocytosis
cgob04145  Phagocytosis
cgob04150  mTOR signaling pathway
cgob04620  Toll-like receptor signaling pathway
KO pathway
ko04142   

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