KEGG   PATHWAY: ptet04142
Entry
ptet04142                   Pathway                                
Name
Lysosome - Puntigrus tetrazona (Sumatra barb)
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
ptet04142  Lysosome
ptet04142

Other DBs
GO: 0005764
Organism
Puntigrus tetrazona (Sumatra barb) [GN:ptet]
Gene
122330086  atp6v0a1b; V-type proton ATPase 116 kDa subunit a isoform X1 [KO:K02154]
122329997  si:ch73-173p19.2; V-type proton ATPase 116 kDa subunit a1 [KO:K02154]
122340937  atp6v0a2a; V-type proton ATPase 116 kDa subunit a2 isoform X1 [KO:K02154]
122341133  atp6v0a1a; V-type proton ATPase 116 kDa subunit a isoform X1 [KO:K02154]
122357901  tcirg1b; T cell immune regulator 1, ATPase H+ transporting V0 subunit a3b isoform X1 [KO:K02154]
122344937  tcirg1a; V-type proton ATPase 116 kDa subunit a3 isoform X1 [KO:K02154]
122345019  atp6v0a2b; LOW QUALITY PROTEIN: V-type proton ATPase 116 kDa subunit a [KO:K02154]
122349228  atp6v0d1; V-type proton ATPase subunit d 1 [KO:K02146]
122326383  atp6v1h; V-type proton ATPase subunit H isoform X1 [KO:K02144]
122328529  atp6ap1a; ATPase H+ transporting accessory protein 1a [KO:K03662]
122328905  V-type proton ATPase subunit S1-like [KO:K03662]
122328906  LOW QUALITY PROTEIN: V-type proton ATPase subunit S1-like [KO:K03662]
122329701  atp6v0cb; ATPase H+ transporting V0 subunit cb [KO:K02155]
122341807  atp6v0ca; ATPase H+ transporting V0 subunit ca [KO:K02155]
122323399  atp6v0b; V-type proton ATPase 21 kDa proteolipid subunit [KO:K03661]
122362494  dmxl2; dmX-like protein 2 isoform X1 [KO:K24155]
122350584  dmxl1; dmX-like protein 1 isoform X1 [KO:K24155]
122332531  LOW QUALITY PROTEIN: WD repeat-containing protein 7 [KO:K24738]
122325043  nuclear receptor coactivator 7 isoform X1 [KO:K25442]
122362067  si:ch211-15d5.11; oxidation resistance protein 1 isoform X1 [KO:K25442]
122347083  ctsa; lysosomal protective protein [KO:K13289] [EC:3.4.16.5]
122349615  si:ch211-122f10.4; cathepsin A-like [KO:K13289] [EC:3.4.16.5]
122324377  ctsbb; cathepsin Bb [KO:K01363] [EC:3.4.22.1]
122361777  ctsba; cathepsin B [KO:K01363] [EC:3.4.22.1]
122358826  ctsc; dipeptidyl peptidase 1 [KO:K01275] [EC:3.4.14.1]
122333333  napsa; napsin-A [KO:K01379] [EC:3.4.23.5]
122362647  LOW QUALITY PROTEIN: cathepsin D-like [KO:K01379] [EC:3.4.23.5]
122362648  LOW QUALITY PROTEIN: cathepsin D-like [KO:K01379] [EC:3.4.23.5]
122343045  cathepsin E-like [KO:K01382] [EC:3.4.23.34]
122357785  ctsf; cathepsin F [KO:K01373] [EC:3.4.22.41]
122322981  ctsh; pro-cathepsin H [KO:K01366] [EC:3.4.22.16]
122359891  ctsk; cathepsin K [KO:K01371] [EC:3.4.22.38]
122327789  cts12; procathepsin L [KO:K01365] [EC:3.4.22.15]
122349146  ctsla; LOW QUALITY PROTEIN: cathepsin La [KO:K01365] [EC:3.4.22.15]
122344774  ctsll; cathepsin L, like [KO:K01365] [EC:3.4.22.15]
122357831  ctso; cathepsin O isoform X1 [KO:K01374] [EC:3.4.22.42]
122335176  ctss1; cathepsin S, ortholog 1 [KO:K01368] [EC:3.4.22.27]
122359890  cathepsin S-like [KO:K01368] [EC:3.4.22.27]
122359892  ctss2.1; cathepsin S, ortholog2, tandem duplicate 1 [KO:K01368] [EC:3.4.22.27]
122359893  cathepsin S-like [KO:K01368] [EC:3.4.22.27]
122335655  cathepsin Z [KO:K08568] [EC:3.4.18.1]
122347066  ctsz; cathepsin Z [KO:K08568] [EC:3.4.18.1]
122328055  legumain-like isoform X1 [KO:K01369] [EC:3.4.22.34]
122331675  legumain-like [KO:K01369] [EC:3.4.22.34]
122356743  lgmn; legumain [KO:K01369] [EC:3.4.22.34]
122354069  legumain-like isoform X1 [KO:K01369] [EC:3.4.22.34]
122361712  tpp1; tripeptidyl-peptidase 1 [KO:K01279] [EC:3.4.14.9]
122357448  gla; alpha-galactosidase A [KO:K01189] [EC:3.2.1.22]
122343140  glb1; beta-galactosidase [KO:K12309] [EC:3.2.1.23]
122342028  gaa; LOW QUALITY PROTEIN: lysosomal alpha-glucosidase [KO:K12316] [EC:3.2.1.20]
122346815  gaa2; lysosomal alpha-glucosidase [KO:K12316] [EC:3.2.1.20]
122360153  gba; lysosomal acid glucosylceramidase [KO:K01201] [EC:3.2.1.45]
122345877  idua; alpha-L-iduronidase [KO:K01217] [EC:3.2.1.76]
122333199  naga; alpha-N-acetylgalactosaminidase [KO:K01204] [EC:3.2.1.49]
122329744  naglu; alpha-N-acetylglucosaminidase [KO:K01205] [EC:3.2.1.50]
122325431  galca; galactocerebrosidase [KO:K01202] [EC:3.2.1.46]
122361425  galcb; galactocerebrosidase isoform X1 [KO:K01202] [EC:3.2.1.46]
122344902  gusb; beta-glucuronidase isoform X1 [KO:K01195] [EC:3.2.1.31]
122323620  tissue alpha-L-fucosidase-like isoform X1 [KO:K01206] [EC:3.2.1.51]
122323621  tissue alpha-L-fucosidase-like [KO:K01206] [EC:3.2.1.51]
122362189  fuca2; plasma alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]
122331208  hexa; beta-hexosaminidase subunit alpha isoform X1 [KO:K12373] [EC:3.2.1.52]
122345290  hexb; beta-hexosaminidase subunit beta isoform X1 [KO:K12373] [EC:3.2.1.52]
122356647  manba; beta-mannosidase isoform X1 [KO:K01192] [EC:3.2.1.25]
122354063  man2b1; LOW QUALITY PROTEIN: lysosomal alpha-mannosidase [KO:K12311] [EC:3.2.1.24]
122323484  sialidase-1-like [KO:K01186] [EC:3.2.1.18]
122323486  LOW QUALITY PROTEIN: sialidase-1-like [KO:K01186] [EC:3.2.1.18]
122327360  hyal2b; hyaluronidase-2 isoform X1 [KO:K01197] [EC:3.2.1.35]
122331099  hyal6; hyaluronoglucosaminidase 6 [KO:K01197] [EC:3.2.1.35]
122331189  hyaluronidase-4 [KO:K01197] [EC:3.2.1.35]
122331190  spam1; hyaluronidase PH-20 [KO:K01197] [EC:3.2.1.35]
122347242  hyal2a; hyaluronidase-2 [KO:K01197] [EC:3.2.1.35]
122350390  si:dkey-72l14.3; glyco_hydro_56 domain-containing protein [KO:K01197] [EC:3.2.1.35]
122350394  hyal3; hyaluronidase-3 [KO:K01197] [EC:3.2.1.35]
122346369  hyal1; hyaluronidase-1 [KO:K01197] [EC:3.2.1.35]
122363018  arsa; arylsulfatase A [KO:K01134] [EC:3.1.6.8]
122341027  LOW QUALITY PROTEIN: arylsulfatase B-like [KO:K01135] [EC:3.1.6.12]
122355254  arsg; arylsulfatase G [KO:K12381] [EC:3.1.6.-]
122349543  galns; N-acetylgalactosamine-6-sulfatase [KO:K01132] [EC:3.1.6.4]
122333726  gnsb; glucosamine (N-acetyl)-6-sulfatase (Sanfilippo disease IIID), b [KO:K01137] [EC:3.1.6.14]
122342674  gnsa; N-acetylglucosamine-6-sulfatase [KO:K01137] [EC:3.1.6.14]
122358021  ids; iduronate 2-sulfatase [KO:K01136] [EC:3.1.6.13]
122327347  sgsh; LOW QUALITY PROTEIN: N-sulphoglucosamine sulphohydrolase [KO:K01565] [EC:3.10.1.1]
122355440  lipf; gastric triacylglycerol lipase isoform X1 [KO:K01052] [EC:3.1.1.13]
122330895  pla2g15; group XV phospholipase A2 [KO:K06129] [EC:3.1.1.5]
122353559  dnase2b; deoxyribonuclease-2-beta [KO:K01158] [EC:3.1.22.1]
122360993  dnase2; deoxyribonuclease-2-alpha [KO:K01158] [EC:3.1.22.1]
122348291  acp2; lysosomal acid phosphatase [KO:K14410] [EC:3.1.3.2]
122329493  acp5b; tartrate-resistant acid phosphatase type 5b [KO:K14379] [EC:3.1.3.2]
122346524  acp5a; tartrate-resistant acid phosphatase type 5a [KO:K14379] [EC:3.1.3.2]
122352942  smpd1; sphingomyelin phosphodiesterase [KO:K12350] [EC:3.1.4.12]
122349984  asah1b; acid ceramidase [KO:K12348] [EC:3.5.1.23]
122357205  asah1a; N-acylsphingosine amidohydrolase (acid ceramidase) 1a isoform X1 [KO:K12348] [EC:3.5.1.23]
122356199  zgc:153169; N(4)-(Beta-N-acetylglucosaminyl)-L-asparaginase [KO:K01444] [EC:3.5.1.26]
122357173  aga; N(4)-(beta-N-acetylglucosaminyl)-L-asparaginase isoform X1 [KO:K01444] [EC:3.5.1.26]
122356317  prosaposin isoform X1 [KO:K12382]
122357195  gm2a; ganglioside GM2 activator [KO:K12383]
122324107  ppt1; LOW QUALITY PROTEIN: palmitoyl-protein thioesterase 1 [KO:K01074] [EC:3.1.2.22]
122340550  ppt2b; lysosomal thioesterase PPT2 [KO:K01074] [EC:3.1.2.22]
122358878  ppt2a.2; lysosomal thioesterase PPT2-A-like [KO:K01074] [EC:3.1.2.22]
122340934  lysosome-associated membrane glycoprotein 1-like [KO:K06528]
122349871  lamp1a; lysosome-associated membrane glycoprotein 1a [KO:K06528]
122352054  lamp1b; lysosome-associated membrane glycoprotein 1b [KO:K06528]
122334053  lysosome-associated membrane glycoprotein 3 [KO:K06562]
122349176  cd68; macrosialin [KO:K06501]
122328686  cd63; CD63 antigen [KO:K06497]
122341058  scarb2c; lysosome membrane protein 2c isoform X1 [KO:K12384]
122341072  scarb2b; LOW QUALITY PROTEIN: lysosome membrane protein 2 [KO:K12384]
122345030  scarb2a; lysosome membrane protein 2a [KO:K12384]
122360462  npc1; NPC intracellular cholesterol transporter 1 [KO:K12385]
122362120  npc2.1; NPC intracellular cholesterol transporter 2 [KO:K13443]
122353544  ctns; LOW QUALITY PROTEIN: cystinosin [KO:K12386]
122324105  si:ch1073-513e17.1; sialin [KO:K12301]
122356608  slc17a5; sialin [KO:K12301]
122353665  slc11a2; natural resistance-associated macrophage protein 2 [KO:K21398]
122323690  laptm4b; lysosomal-associated transmembrane protein 4B [KO:K12387]
122325019  laptm4a; lysosomal-associated transmembrane protein 4A [KO:K12387]
122345564  abca2; ATP-binding cassette sub-family A member 2 isoform X1 [KO:K05642]
122344707  abcb9; ATP-binding cassette sub-family B member 9 [KO:K05656]
122324551  cd164; sialomucin core protein 24 [KO:K06546]
122350256  entpd4; ectonucleoside triphosphate diphosphohydrolase 4 isoform X1 [KO:K12305] [EC:3.6.1.6]
122354493  sort1a; sortilin [KO:K12388]
122350155  sort1b; sortilin 1b [KO:K12388]
122343512  si:dkey-159a18.1; sortilin [KO:K12388]
122329249  cln3; battenin [KO:K12389]
122351394  cln5; ceroid-lipofuscinosis neuronal protein 5 [KO:K12390]
122325629  mfsd8l2; major facilitator superfamily domain-containing protein 8 [KO:K12307]
122332135  LOW QUALITY PROTEIN: major facilitator superfamily domain-containing protein 8-like [KO:K12307]
122355290  mfsd8; major facilitator superfamily domain-containing protein 8 [KO:K12307]
122359509  mfsd8l1; major facilitator superfamily domain-containing protein 8 [KO:K12307]
122356929  si:dkey-192p21.6; heparan-alpha-glucosaminide N-acetyltransferase isoform X1 [KO:K10532] [EC:2.3.1.78]
122343495  hgsnat; heparan-alpha-glucosaminide N-acetyltransferase isoform X1 [KO:K10532] [EC:2.3.1.78]
122347276  formylglycine-generating enzyme-like [KO:K13444] [EC:1.8.3.7]
122347295  sumf1; LOW QUALITY PROTEIN: formylglycine-generating enzyme [KO:K13444] [EC:1.8.3.7]
122342711  gnptab; LOW QUALITY PROTEIN: N-acetylglucosamine-1-phosphotransferase subunits alpha/beta [KO:K08239] [EC:2.7.8.17]
122329773  gnptg; N-acetylglucosamine-1-phosphotransferase subunit gamma isoform X1 [KO:K10087]
122360205  nagpa; N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [KO:K01125] [EC:3.1.4.45]
122324640  igf2r; cation-independent mannose-6-phosphate receptor [KO:K06564]
122360646  m6pr; cation-dependent mannose-6-phosphate receptor [KO:K10089]
122350147  clta; clathrin light chain A isoform X1 [KO:K04644]
122358067  cltb; clathrin light chain B isoform X1 [KO:K04645]
122350466  cltcl1; clathrin heavy chain 1 [KO:K04646]
122352513  cltca; clathrin, heavy chain a (Hc) isoform X1 [KO:K04646]
122359574  cltcb; clathrin, heavy chain b (Hc) isoform X1 [KO:K04646]
122348615  ap1g1; AP-1 complex subunit gamma-1 isoform X1 [KO:K12391]
122358037  ap1g2; AP-1 complex subunit gamma-like 2 [KO:K12391]
122345260  ap1b1; AP-1 complex subunit beta-1 isoform X1 [KO:K12392]
122333324  ap1m2; AP-1 complex subunit mu-2 [KO:K12393]
122335622  ap1m1; AP-1 complex subunit mu-1 [KO:K12393]
122347269  ap1m3; adaptor related protein complex 1 subunit mu 3 isoform X1 [KO:K12393]
122332738  zgc:162858; AP-1 complex subunit sigma-2 isoform X1 [KO:K12394]
122354285  ap1s2; AP-1 complex subunit sigma-2 [KO:K12394]
122349323  ap1s1; AP-1 complex subunit sigma-1A [KO:K12394]
122356906  ap1s3b; AP-1 complex subunit sigma-3b [KO:K12395]
122358269  AP-1 complex subunit sigma-3-like [KO:K12395]
122358841  ap1s3a; AP-1 complex subunit sigma-3a isoform X1 [KO:K12395]
122327194  ap3d1; AP-3 complex subunit delta-1 isoform X1 [KO:K12396]
122330980  LOW QUALITY PROTEIN: AP-3 complex subunit beta-2-like [KO:K12397]
122341035  ap3b1a; AP-3 complex subunit beta-1 isoform X1 [KO:K12397]
122356376  ap3m1; AP-3 complex subunit mu-1 [KO:K12398]
122345954  ap3m2; AP-3 complex subunit mu-2 [KO:K12398]
122330295  ap3s2; AP-3 complex subunit sigma-2 [KO:K12399]
122350986  ap3s1; AP-3 complex subunit sigma-1 isoform X1 [KO:K12399]
122330622  ap4e1; AP-4 complex subunit epsilon-1 [KO:K12400]
122328601  ap4b1; AP-4 complex subunit beta-1 isoform X1 [KO:K12401]
122352505  ap4m1; AP-4 complex subunit mu-1 isoform X1 [KO:K12402]
122361785  ap4s1; AP-4 complex subunit sigma-1 [KO:K12403]
122341570  gga3b; ADP-ribosylation factor-binding protein GGA3 isoform X1 [KO:K12404]
122347058  gga3a; ADP-ribosylation factor-binding protein GGA3a isoform X1 [KO:K12404]
122346801  gga1; ADP-ribosylation factor-binding protein GGA1 [KO:K12404]
122348073  mcoln1a; mucolipin-1a isoform X1 [KO:K04992]
122341667  mcoln1b; mucolipin-1b isoform X1 [KO:K04992]
122335928  si:dkeyp-75b4.8; lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [KO:K19363]
122341043  lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [KO:K19363]
122355370  cell death-inducing p53-target protein 1-like [KO:K19363]
122341679  litaf; lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [KO:K19363]
122342185  lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [KO:K19363]
122352522  si:ch211-202h22.9; LITAF domain-containing protein [KO:K19363]
122352604  si:ch211-202h22.8; lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog-like [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
ptet00511  Other glycan degradation
ptet00531  Glycosaminoglycan degradation
ptet04130  SNARE interactions in vesicular transport
ptet04140  Autophagy - animal
ptet04144  Endocytosis
KO pathway
ko04142   
LinkDB

DBGET integrated database retrieval system