KEGG   PATHWAY: tros04142
Entry
tros04142                   Pathway                                
Name
Lysosome - Triplophysa rosa
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
tros04142  Lysosome
tros04142

Other DBs
GO: 0005764
Organism
Triplophysa rosa [GN:tros]
Gene
130564071  tcirg1b; T cell immune regulator 1, ATPase H+ transporting V0 subunit a3b isoform X1 [KO:K02154]
130546464  atp6v0a2a; V-type proton ATPase 116 kDa subunit a 2 isoform X1 [KO:K02154]
130546671  si:ch73-173p19.2; LOW QUALITY PROTEIN: V-type proton ATPase 116 kDa subunit a 1 [KO:K02154]
130546752  atp6v0a1b; V-type proton ATPase 116 kDa subunit a isoform X1 [KO:K02154]
130546941  atp6v0a2b; V-type proton ATPase 116 kDa subunit a [KO:K02154]
130561484  atp6v0a1a; V-type proton ATPase 116 kDa subunit a isoform X1 [KO:K02154]
130553770  atp6v0d1; V-type proton ATPase subunit d 1 [KO:K02146]
130554423  atp6v1h; V-type proton ATPase subunit H isoform X1 [KO:K02144]
130545001  atp6ap1b; V-type proton ATPase subunit S1b [KO:K03662]
130549918  atp6ap1a; ATPase H+ transporting accessory protein 1a [KO:K03662]
130546729  atp6v0cb; ATPase H+ transporting V0 subunit cb [KO:K02155]
130561534  atp6v0ca; ATPase H+ transporting V0 subunit ca [KO:K02155]
130554936  atp6v0b; V-type proton ATPase 21 kDa proteolipid subunit [KO:K03661]
130567571  dmxl1; dmX-like protein 1 [KO:K24155]
130549836  dmxl2; dmX-like protein 2 isoform X1 [KO:K24155]
130570156  WD repeat-containing protein 7 isoform X1 [KO:K24738]
130565546  nuclear receptor coactivator 7 isoform X1 [KO:K25442]
130560496  si:ch211-15d5.11; oxidation resistance protein 1 isoform X1 [KO:K25442]
130556422  ctsa; lysosomal protective protein [KO:K13289] [EC:3.4.16.5]
130556806  si:ch211-122f10.4; LOW QUALITY PROTEIN: cathepsin A-like [KO:K13289] [EC:3.4.16.5]
130565554  ctsbb; cathepsin Bb [KO:K01363] [EC:3.4.22.1]
130560616  ctsba; cathepsin B [KO:K01363] [EC:3.4.22.1]
130549342  ctsc; dipeptidyl peptidase 1 [KO:K01275] [EC:3.4.14.1]
130561701  napsa; napsin-A [KO:K01379] [EC:3.4.23.5]
130562806  ctsd; cathepsin D [KO:K01379] [EC:3.4.23.5]
130547555  nots; nothepsin [KO:K01382] [EC:3.4.23.34]
130563615  ctsf; cathepsin F [KO:K01373] [EC:3.4.22.41]
130562877  ctsh; pro-cathepsin H [KO:K01366] [EC:3.4.22.16]
130558316  ctsk; cathepsin K isoform X1 [KO:K01371] [EC:3.4.22.38]
130566173  ctsll; cathepsin L, like [KO:K01365] [EC:3.4.22.15]
130560664  ctsl.1; cathepsin L.1 [KO:K01365] [EC:3.4.22.15]
130548424  cts12; procathepsin L [KO:K01365] [EC:3.4.22.15]
130551380  ctsla; cathepsin La [KO:K01365] [EC:3.4.22.15]
130564054  ctso; cathepsin O [KO:K01374] [EC:3.4.22.42]
130558096  cathepsin S-like [KO:K01368] [EC:3.4.22.27]
130566896  ctss1; cathepsin S, ortholog 1 isoform X1 [KO:K01368] [EC:3.4.22.27]
130554645  cathepsin Z [KO:K08568] [EC:3.4.18.1]
130557241  ctsz; cathepsin Z [KO:K08568] [EC:3.4.18.1]
130569448  legumain-like isoform X1 [KO:K01369] [EC:3.4.22.34]
130569449  legumain-like [KO:K01369] [EC:3.4.22.34]
130559654  lgmn; legumain [KO:K01369] [EC:3.4.22.34]
130560242  tpp1; tripeptidyl-peptidase 1 [KO:K01279] [EC:3.4.14.9]
130563445  gla; LOW QUALITY PROTEIN: alpha-galactosidase A [KO:K01189] [EC:3.2.1.22]
130552742  glb1; beta-galactosidase [KO:K12309] [EC:3.2.1.23]
130553631  gaa2; lysosomal alpha-glucosidase [KO:K12316] [EC:3.2.1.20]
130561401  gaa; lysosomal alpha-glucosidase isoform X1 [KO:K12316] [EC:3.2.1.20]
130558170  lysosomal acid glucosylceramidase-like isoform X1 [KO:K01201] [EC:3.2.1.45]
130570260  idua; alpha-L-iduronidase isoform X1 [KO:K01217] [EC:3.2.1.76]
130547930  naga; alpha-N-acetylgalactosaminidase [KO:K01204] [EC:3.2.1.49]
130547260  naglu; alpha-N-acetylglucosaminidase [KO:K01205] [EC:3.2.1.50]
130565463  galca; galactocerebrosidase [KO:K01202] [EC:3.2.1.46]
130560691  galcb; galactocerebrosidase isoform X1 [KO:K01202] [EC:3.2.1.46]
130549605  gusb; beta-glucuronidase [KO:K01195] [EC:3.2.1.31]
130560796  fuca2; plasma alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]
130567437  tissue alpha-L-fucosidase-like [KO:K01206] [EC:3.2.1.51]
130567539  fuca1.2; alpha-L-fucosidase 1, tandem duplicate 2 [KO:K01206] [EC:3.2.1.51]
130552215  hexa; beta-hexosaminidase subunit alpha [KO:K12373] [EC:3.2.1.52]
130567086  hexb; beta-hexosaminidase subunit beta isoform X1 [KO:K12373] [EC:3.2.1.52]
130559019  manba; beta-mannosidase isoform X1 [KO:K01192] [EC:3.2.1.25]
130571429  man2b1; lysosomal alpha-mannosidase [KO:K12311] [EC:3.2.1.24]
130567026  sialidase-1-like [KO:K01186] [EC:3.2.1.18]
130567049  sialidase-1-like [KO:K01186] [EC:3.2.1.18]
130567141  sialidase-1-like isoform X1 [KO:K01186] [EC:3.2.1.18]
130552244  hyal6; hyaluronoglucosaminidase 6 [KO:K01197] [EC:3.2.1.35]
130552245  hyaluronidase-4 [KO:K01197] [EC:3.2.1.35]
130552294  hyaluronidase-5-like [KO:K01197] [EC:3.2.1.35]
130552295  hyaluronidase-5-like [KO:K01197] [EC:3.2.1.35]
130567850  si:dkey-72l14.3; LOW QUALITY PROTEIN: glyco_hydro_56 domain-containing protein [KO:K01197] [EC:3.2.1.35]
130567856  hyal3; hyaluronidase-3 [KO:K01197] [EC:3.2.1.35]
130549186  hyal2b; hyaluronidase-2 isoform X1 [KO:K01197] [EC:3.2.1.35]
130556863  hyal1; hyaluronidase-1 [KO:K01197] [EC:3.2.1.35]
130557352  hyal2a; hyaluronidase-2 [KO:K01197] [EC:3.2.1.35]
130562757  arsa; arylsulfatase A [KO:K01134] [EC:3.1.6.8]
130550724  arsb; arylsulfatase B [KO:K01135] [EC:3.1.6.12]
130550726  arylsulfatase B-like [KO:K01135] [EC:3.1.6.12]
130569005  arsg; arylsulfatase G [KO:K12381] [EC:3.1.6.-]
130558994  galns; N-acetylgalactosamine-6-sulfatase [KO:K01132] [EC:3.1.6.4]
130546344  gnsb; glucosamine (N-acetyl)-6-sulfatase (Sanfilippo disease IIID), b [KO:K01137] [EC:3.1.6.14]
130547864  gnsa; N-acetylglucosamine-6-sulfatase [KO:K01137] [EC:3.1.6.14]
130563612  ids; iduronate 2-sulfatase [KO:K01136] [EC:3.1.6.13]
130548795  sgsh; N-sulphoglucosamine sulphohydrolase [KO:K01565] [EC:3.10.1.1]
130569142  lipf; gastric triacylglycerol lipase [KO:K01052] [EC:3.1.1.13]
130551487  pla2g15; group XV phospholipase A2 [KO:K06129] [EC:3.1.1.5]
130571505  dnase2b; deoxyribonuclease-2-beta [KO:K01158] [EC:3.1.22.1]
130557515  dnase2; deoxyribonuclease-2-alpha [KO:K01158] [EC:3.1.22.1]
130556125  acp2; lysosomal acid phosphatase [KO:K14410] [EC:3.1.3.2]
130547087  acp5b; tartrate-resistant acid phosphatase type 5b [KO:K14379] [EC:3.1.3.2]
130556915  acp5a; tartrate-resistant acid phosphatase type 5a isoform X1 [KO:K14379] [EC:3.1.3.2]
130546532  smpd1; sphingomyelin phosphodiesterase [KO:K12350] [EC:3.1.4.12]
130563704  asah1a; N-acylsphingosine amidohydrolase (acid ceramidase) 1a [KO:K12348] [EC:3.5.1.23]
130552693  asah1b; acid ceramidase [KO:K12348] [EC:3.5.1.23]
130564226  aga; N(4)-(beta-N-acetylglucosaminyl)-L-asparaginase [KO:K01444] [EC:3.5.1.26]
130558905  zgc:153169; LOW QUALITY PROTEIN: N(4)-(beta-N-acetylglucosaminyl)-L-asparaginase [KO:K01444] [EC:3.5.1.26]
130559192  psap; prosaposin isoform X1 [KO:K12382]
130563923  ganglioside GM2 activator-like [KO:K12383]
130564554  lysosomal thioesterase PPT2-like [KO:K01074] [EC:3.1.2.22]
130566676  ppt1; palmitoyl-protein thioesterase 1 [KO:K01074] [EC:3.1.2.22]
130566963  ppt2b; lysosomal thioesterase PPT2 [KO:K01074] [EC:3.1.2.22]
130553531  lamp1a; lysosome-associated membrane glycoprotein 1a [KO:K06528]
130556081  lamp1b; lysosome-associated membrane glycoprotein 1b [KO:K06528]
130549096  lamp3; lysosome-associated membrane glycoprotein 3 [KO:K06562]
130549648  cd68; macrosialin [KO:K06501]
130572068  cd63; CD63 antigen [KO:K06497]
130569950  scarb2c; lysosome membrane protein 2c [KO:K12384]
130569951  scarb2b; lysosome membrane protein 2 [KO:K12384]
130545803  scarb2a; lysosome membrane protein 2a [KO:K12384]
130554736  npc1; NPC intracellular cholesterol transporter 1 [KO:K12385]
130560024  npc2.1; NPC intracellular cholesterol transporter 2 [KO:K13443]
130571195  ctns; cystinosin [KO:K12386]
130559173  slc17a5; sialin [KO:K12301]
130566923  si:ch1073-513e17.1; sialin [KO:K12301]
130549839  slc11a2; natural resistance-associated macrophage protein 2 [KO:K21398]
130566348  laptm4a; lysosomal-associated transmembrane protein 4A [KO:K12387]
130566932  laptm4b; lysosomal-associated transmembrane protein 4B [KO:K12387]
130545757  abca2; ATP-binding cassette sub-family A member 2 [KO:K05642]
130550005  abcb9; ATP-binding cassette sub-family B member 9 [KO:K05656]
130565979  cd164; sialomucin core protein 24 [KO:K06546]
130568432  entpd4; ectonucleoside triphosphate diphosphohydrolase 4 isoform X1 [KO:K12305] [EC:3.6.1.6]
130571308  sort1a; sortilin isoform X1 [KO:K12388]
130548168  si:dkey-159a18.1; sortilin [KO:K12388]
130568027  sort1b; sortilin 1b [KO:K12388]
130554926  mfsd8l2; major facilitator superfamily domain-containing protein 8 [KO:K12307]
130548586  mfsd8l1; major facilitator superfamily domain-containing protein 8 isoform X1 [KO:K12307]
130569048  mfsd8; major facilitator superfamily domain-containing protein 8 [KO:K12307]
130559029  si:dkey-192p21.6; heparan-alpha-glucosaminide N-acetyltransferase isoform X1 [KO:K10532] [EC:2.3.1.78]
130553671  hgsnat; heparan-alpha-glucosaminide N-acetyltransferase isoform X1 [KO:K10532] [EC:2.3.1.78]
130557201  sumf1; formylglycine-generating enzyme [KO:K13444] [EC:1.8.3.7]
130547516  gnptab; N-acetylglucosamine-1-phosphotransferase subunits alpha/beta [KO:K08239] [EC:2.7.8.17]
130547191  gnptg; N-acetylglucosamine-1-phosphotransferase subunit gamma isoform X1 [KO:K10087]
130558514  nagpa; N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [KO:K01125] [EC:3.1.4.45]
130565697  igf2r; cation-independent mannose-6-phosphate receptor [KO:K06564]
130557558  m6pr; cation-dependent mannose-6-phosphate receptor [KO:K10089]
130552786  clta; clathrin light chain A isoform X1 [KO:K04644]
130564069  cltb; clathrin light chain B isoform X1 [KO:K04645]
130564616  cltcb; clathrin, heavy chain b (Hc) isoform X1 [KO:K04646]
130545815  cltca; clathrin, heavy chain a (Hc) [KO:K04646]
130551189  clathrin heavy chain 1-like [KO:K04646]
130554160  ap1g2; LOW QUALITY PROTEIN: AP-1 complex subunit gamma-like 2 [KO:K12391]
130555831  ap1g1; AP-1 complex subunit gamma-1 [KO:K12391]
130565605  ap1b1; AP-1 complex subunit beta-1 [KO:K12392]
130554811  ap1m1; AP-1 complex subunit mu-1 [KO:K12393]
130556823  ap1m2; AP-1 complex subunit mu-2 [KO:K12393]
130557011  ap1m3; adaptor related protein complex 1 subunit mu 3 [KO:K12393]
130545567  zgc:162858; AP-1 complex subunit sigma-2 isoform X1 [KO:K12394]
130570943  ap1s2; AP-1 complex subunit sigma-2 [KO:K12394]
130556244  ap1s1; AP-1 complex subunit sigma-1A isoform X1 [KO:K12394]
130553971  ap1s3b; AP-1 complex subunit sigma-3b isoform X1 [KO:K12395]
130549874  ap1s3a; AP-1 complex subunit sigma-3a [KO:K12395]
130548681  ap3d1; AP-3 complex subunit delta-1 isoform X1 [KO:K12396]
130551524  AP-3 complex subunit beta-2 isoform X1 [KO:K12397]
130570120  ap3b1a; AP-3 complex subunit beta-1 [KO:K12397]
130569365  ap3m2; AP-3 complex subunit mu-2 [KO:K12398]
130559178  ap3m1; AP-3 complex subunit mu-1 isoform X1 [KO:K12398]
130552242  ap3s2; AP-3 complex subunit sigma-2 [KO:K12399]
130567710  ap3s1; AP-3 complex subunit sigma-1 isoform X1 [KO:K12399]
130551776  ap4e1; AP-4 complex subunit epsilon-1 isoform X1 [KO:K12400]
130571761  ap4b1; AP-4 complex subunit beta-1 [KO:K12401]
130546055  ap4m1; AP-4 complex subunit mu-1 [KO:K12402]
130560769  ap4s1; AP-4 complex subunit sigma-1 isoform X1 [KO:K12403]
130561101  gga3b; ADP-ribosylation factor-binding protein GGA3 [KO:K12404]
130557190  gga1; ADP-ribosylation factor-binding protein GGA1 [KO:K12404]
130553596  mcoln1a; mucolipin-1a isoform X1 [KO:K04992]
130561108  mcoln1b; mucolipin-1b [KO:K04992]
130552596  si:dkeyp-75b4.8; lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [KO:K19363]
130561327  lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [KO:K19363]
130561564  litaf; lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [KO:K19363]
130561853  lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [KO:K19363]
130549501  si:ch211-202h22.9; cell death-inducing p53-target protein 1 homolog [KO:K19363]
130568748  lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [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
tros00511  Other glycan degradation
tros00531  Glycosaminoglycan degradation
tros04130  SNARE interactions in vesicular transport
tros04140  Autophagy - animal
tros04144  Endocytosis
KO pathway
ko04142   
LinkDB

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