KEGG   PATHWAY: spu04142
Entry
spu04142                    Pathway                                
Name
Lysosome - Strongylocentrotus purpuratus (purple sea urchin)
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
spu04142  Lysosome
spu04142

Other DBs
GO: 0005764
Organism
Strongylocentrotus purpuratus (purple sea urchin) [GN:spu]
Gene
578518  V-type proton ATPase 116 kDa subunit a [KO:K02154]
100893129  V-type proton ATPase 116 kDa subunit a [KO:K02154]
115929009  V-type proton ATPase 116 kDa subunit a-like isoform X1 [KO:K02154]
586400  V-type proton ATPase 116 kDa subunit a isoform X1 [KO:K02154]
574666  V-type proton ATPase subunit d 1 [KO:K02146]
752744  V-type proton ATPase subunit H-like [KO:K02144]
589255  V-type proton ATPase subunit S1 [KO:K03662]
593891  V-type proton ATPase subunit S1 [KO:K03662]
593221  V-type proton ATPase 16 kDa proteolipid subunit [KO:K02155]
585744  V-type proton ATPase 21 kDa proteolipid subunit [KO:K03661]
115925169  V-type proton ATPase 21 kDa proteolipid subunit-like [KO:K03661]
585848  dmX-like protein 2 isoform X1 [KO:K24155]
578806  WD repeat-containing protein 7 isoform X1 [KO:K24738]
582830  nuclear receptor coactivator 7 isoform X1 [KO:K25442]
588485  lysosomal protective protein [KO:K13289] [EC:3.4.16.5]
589075  lysosomal protective protein [KO:K13289] [EC:3.4.16.5]
594128  lysosomal protective protein [KO:K13289] [EC:3.4.16.5]
582922  cathepsin B [KO:K01363] [EC:3.4.22.1]
586157  dipeptidyl peptidase 1 [KO:K01275] [EC:3.4.14.1]
764711  dipeptidyl peptidase 1 isoform X2 [KO:K01275] [EC:3.4.14.1]
115919030  dipeptidyl peptidase 1-like isoform X1 [KO:K01275] [EC:3.4.14.1]
575021  lysosomal aspartic protease [KO:K01379] [EC:3.4.23.5]
586859  cathepsin L [KO:K01373] [EC:3.4.22.41]
115929652  cathepsin L-like [KO:K01373] [EC:3.4.22.41]
575142  cathepsin L1 [KO:K01365] [EC:3.4.22.15]
575203  cathepsin L1 [KO:K01365] [EC:3.4.22.15]
579572  cathepsin L1 [KO:K01365] [EC:3.4.22.15]
575070  cathepsin L1 [KO:K01365] [EC:3.4.22.15]
577926  cathepsin L1 [KO:K01365] [EC:3.4.22.15]
763308  cathepsin L1 [KO:K01365] [EC:3.4.22.15]
590693  digestive cysteine proteinase 1 [KO:K01365] [EC:3.4.22.15]
100888532  cathepsin L1 [KO:K01365] [EC:3.4.22.15]
115918235  cathepsin L1-like [KO:K01365] [EC:3.4.22.15]
575506  cathepsin L1 [KO:K01365] [EC:3.4.22.15]
575275  cathepsin L1 [KO:K01365] [EC:3.4.22.15]
593754  cathepsin O [KO:K01374] [EC:3.4.22.42]
583170  cathepsin Z [KO:K08568] [EC:3.4.18.1]
580617  cathepsin Z [KO:K08568] [EC:3.4.18.1]
115918298  cathepsin Z-like [KO:K08568] [EC:3.4.18.1]
100889415  legumain [KO:K01369] [EC:3.4.22.34]
587532  beta-galactosidase [KO:K12309] [EC:3.2.1.23]
115925974  beta-galactosidase-like [KO:K12309] [EC:3.2.1.23]
764550  sucrase-isomaltase, intestinal [KO:K12316] [EC:3.2.1.20]
582502  LOW QUALITY PROTEIN: sucrase-isomaltase, intestinal [KO:K12316] [EC:3.2.1.20]
594677  lysosomal acid glucosylceramidase [KO:K01201] [EC:3.2.1.45]
592425  lysosomal acid glucosylceramidase-like [KO:K01201] [EC:3.2.1.45]
100892921  lysosomal acid glucosylceramidase [KO:K01201] [EC:3.2.1.45]
589674  lysosomal acid glucosylceramidase [KO:K01201] [EC:3.2.1.45]
592184  alpha-L-iduronidase [KO:K01217] [EC:3.2.1.76]
115924180  alpha-L-iduronidase-like [KO:K01217] [EC:3.2.1.76]
587840  alpha-N-acetylgalactosaminidase isoform X1 [KO:K01204] [EC:3.2.1.49]
581755  alpha-N-acetylgalactosaminidase [KO:K01204] [EC:3.2.1.49]
580105  alpha-N-acetylglucosaminidase [KO:K01205] [EC:3.2.1.50]
100893810  alpha-N-acetylglucosaminidase [KO:K01205] [EC:3.2.1.50]
115929153  alpha-N-acetylglucosaminidase-like [KO:K01205] [EC:3.2.1.50]
100891543  alpha-N-acetylglucosaminidase [KO:K01205] [EC:3.2.1.50]
584869  galactocerebrosidase [KO:K01202] [EC:3.2.1.46]
584891  galactocerebrosidase isoform X1 [KO:K01202] [EC:3.2.1.46]
575689  beta-glucuronidase [KO:K01195] [EC:3.2.1.31]
592142  alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]
590798  alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]
592157  alpha-L-fucosidase isoform X1 [KO:K01206] [EC:3.2.1.51]
753347  alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]
584354  alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]
594823  beta-hexosaminidase subunit alpha isoform X1 [KO:K12373] [EC:3.2.1.52]
593854  beta-mannosidase isoform X1 [KO:K01192] [EC:3.2.1.25]
591324  lysosomal alpha-mannosidase [KO:K12311] [EC:3.2.1.24]
755983  lysosomal alpha-mannosidase isoform X1 [KO:K12311] [EC:3.2.1.24]
585449  sialidase-1 [KO:K01186] [EC:3.2.1.18]
100890176  sialidase-1 [KO:K01186] [EC:3.2.1.18]
105446099  sialidase-1-like [KO:K01186] [EC:3.2.1.18]
100890017  sialidase-1 [KO:K01186] [EC:3.2.1.18]
115922781  sialidase-1-like [KO:K01186] [EC:3.2.1.18]
100890097  sialidase-1 [KO:K01186] [EC:3.2.1.18]
584769  hyaluronidase 1 [KO:K01197] [EC:3.2.1.35]
582946  hyaluronidase isoform X2 [KO:K01197] [EC:3.2.1.35]
575967  hyaluronidase-1 isoform X2 [KO:K01197] [EC:3.2.1.35]
115924575  hyaluronidase-like [KO:K01197] [EC:3.2.1.35]
583591  arylsulfatase A isoform X2 [KO:K01134] [EC:3.1.6.8]
592372  arylsulfatase A isoform X1 [KO:K01134] [EC:3.1.6.8]
593966  arylsulfatase A [KO:K01134] [EC:3.1.6.8]
583611  arylsulfatase A isoform X2 [KO:K01134] [EC:3.1.6.8]
574839  arylsulfatase A [KO:K01134] [EC:3.1.6.8]
575079  arylsulfatase [KO:K01134] [EC:3.1.6.8]
582391  arylsulfatase [KO:K01134] [EC:3.1.6.8]
373270  ARS; arylsulfatase precursor [KO:K01134] [EC:3.1.6.8]
115926687  arylsulfatase A-like [KO:K01134] [EC:3.1.6.8]
578528  arylsulfatase [KO:K01134] [EC:3.1.6.8]
575336  LOW QUALITY PROTEIN: arylsulfatase [KO:K01134] [EC:3.1.6.8]
583464  LOW QUALITY PROTEIN: arylsulfatase B [KO:K01135] [EC:3.1.6.12]
586205  arylsulfatase B [KO:K01135] [EC:3.1.6.12]
584709  arylsulfatase B-like [KO:K01135] [EC:3.1.6.12]
583878  arylsulfatase B [KO:K01135] [EC:3.1.6.12]
100891337  arylsulfatase B [KO:K01135] [EC:3.1.6.12]
591704  arylsulfatase B [KO:K01135] [EC:3.1.6.12]
115925932  LOW QUALITY PROTEIN: arylsulfatase B-like [KO:K01135] [EC:3.1.6.12]
587189  arylsulfatase J [KO:K01135] [EC:3.1.6.12]
115918901  arylsulfatase B-like [KO:K01135] [EC:3.1.6.12]
105439655  arylsulfatase J [KO:K01135] [EC:3.1.6.12]
579130  N-acetylgalactosamine-6-sulfatase-like [KO:K01132] [EC:3.1.6.4]
588014  N-acetylgalactosamine-6-sulfatase isoform X1 [KO:K01132] [EC:3.1.6.4]
588183  N-acetylglucosamine-6-sulfatase isoform X1 [KO:K01137] [EC:3.1.6.14]
579992  iduronate 2-sulfatase [KO:K01136] [EC:3.1.6.13]
584730  iduronate 2-sulfatase [KO:K01136] [EC:3.1.6.13]
588631  iduronate 2-sulfatase [KO:K01136] [EC:3.1.6.13]
587680  iduronate 2-sulfatase [KO:K01136] [EC:3.1.6.13]
100892667  iduronate 2-sulfatase [KO:K01136] [EC:3.1.6.13]
115922305  iduronate 2-sulfatase-like isoform X1 [KO:K01136] [EC:3.1.6.13]
100892602  iduronate 2-sulfatase [KO:K01136] [EC:3.1.6.13]
588607  iduronate 2-sulfatase [KO:K01136] [EC:3.1.6.13]
115918435  iduronate 2-sulfatase-like [KO:K01136] [EC:3.1.6.13]
589739  N-sulphoglucosamine sulphohydrolase [KO:K01565] [EC:3.10.1.1]
592189  N-sulphoglucosamine sulphohydrolase [KO:K01565] [EC:3.10.1.1]
115923568  N-sulphoglucosamine sulphohydrolase-like [KO:K01565] [EC:3.10.1.1]
586550  gastric triacylglycerol lipase [KO:K01052] [EC:3.1.1.13]
588190  group XV phospholipase A2 [KO:K06129] [EC:3.1.1.5]
100891282  plancitoxin-1 isoform X1 [KO:K01158] [EC:3.1.22.1]
755786  plancitoxin-1 [KO:K01158] [EC:3.1.22.1]
579609  prostatic acid phosphatase [KO:K14410] [EC:3.1.3.2]
762863  lysosomal acid phosphatase [KO:K14410] [EC:3.1.3.2]
105446078  lysosomal acid phosphatase-like [KO:K14410] [EC:3.1.3.2]
579390  tartrate-resistant acid phosphatase type 5 [KO:K14379] [EC:3.1.3.2]
592236  tartrate-resistant acid phosphatase type 5 [KO:K14379] [EC:3.1.3.2]
584906  sphingomyelin phosphodiesterase isoform X1 [KO:K12350] [EC:3.1.4.12]
579635  acid ceramidase [KO:K12348] [EC:3.5.1.23]
593569  acid ceramidase [KO:K12348] [EC:3.5.1.23]
593612  N(4)-(Beta-N-acetylglucosaminyl)-L-asparaginase [KO:K01444] [EC:3.5.1.26]
581297  prosaposin [KO:K12382]
754171  prosaposin [KO:K12382]
591308  ganglioside GM2 activator [KO:K12383]
764009  uncharacterized protein LOC764009 [KO:K12383]
587708  palmitoyl-protein thioesterase 1 [KO:K01074] [EC:3.1.2.22]
586868  lysosomal thioesterase PPT2-A isoform X1 [KO:K01074] [EC:3.1.2.22]
584467  lysosome-associated membrane glycoprotein 1 [KO:K06528]
100890621  uncharacterized protein P19A11.02c [KO:K06562]
593793  CD63 antigen isoform X1 [KO:K06497]
752491  CD63 antigen isoform X1 [KO:K06497]
100891785  CD63 antigen [KO:K06497]
115919013  CD63 antigen-like [KO:K06497]
115928896  CD63 antigen-like [KO:K06497]
579868  LOW QUALITY PROTEIN: lysosome membrane protein 2 [KO:K12384]
100892205  lysosome membrane protein 2 [KO:K12384]
589188  lysosome membrane protein 2 [KO:K12384]
100889403  lysosome membrane protein 2 [KO:K12384]
579887  NPC intracellular cholesterol transporter 1 [KO:K12385]
586083  NPC intracellular cholesterol transporter 1-like [KO:K12385]
579810  NPC intracellular cholesterol transporter 2 homolog a [KO:K13443]
754752  cystinosin [KO:K12386]
590808  cystinosin [KO:K12386]
574944  sialin [KO:K12301]
590947  sialin isoform X2 [KO:K12301]
580383  putative inorganic phosphate cotransporter [KO:K12301]
100889923  sialin [KO:K12301]
764531  sialin-like [KO:K12301]
580324  sialin [KO:K12301]
755488  sialin-like [KO:K12301]
585959  sialin isoform X1 [KO:K12301]
589878  sialin [KO:K12301]
594709  putative inorganic phosphate cotransporter [KO:K12301]
105438525  vesicular glutamate transporter 3-like [KO:K12301]
585062  sialin-like [KO:K12301]
578318  sialin [KO:K12301]
591427  sialin [KO:K12301]
587737  sialin isoform X1 [KO:K12301]
576440  natural resistance-associated macrophage protein 2 isoform X1 [KO:K21398]
100891619  natural resistance-associated macrophage protein 1 [KO:K21398]
115929866  natural resistance-associated macrophage protein 2-like [KO:K21398]
100890040  lysosomal-associated transmembrane protein 4A [KO:K12387]
105440581  lysosomal-associated transmembrane protein 4B [KO:K12387]
593710  ATP-binding cassette sub-family A member 2 isoform X1 [KO:K05642]
575393  ATP-binding cassette sub-family B member 9 isoform X1 [KO:K05656]
100892777  ATP-binding cassette sub-family B member 9 [KO:K05656]
762529  porimin-like [KO:K06546]
580175  ectonucleoside triphosphate diphosphohydrolase 4 isoform X1 [KO:K12305] [EC:3.6.1.6]
115918638  ectonucleoside triphosphate diphosphohydrolase 4-like [KO:K12305] [EC:3.6.1.6]
754367  sortilin isoform X1 [KO:K12388]
100889202  battenin isoform X1 [KO:K12389]
105440370  battenin-like [KO:K12389]
100893689  uncharacterized protein LOC100893689 [KO:K12307]
590342  heparan-alpha-glucosaminide N-acetyltransferase isoform X1 [KO:K10532] [EC:2.3.1.78]
584064  heparan-alpha-glucosaminide N-acetyltransferase isoform X1 [KO:K10532] [EC:2.3.1.78]
752871  heparan-alpha-glucosaminide N-acetyltransferase [KO:K10532] [EC:2.3.1.78]
577665  formylglycine-generating enzyme [KO:K13444] [EC:1.8.3.7]
115919192  formylglycine-generating enzyme-like [KO:K13444] [EC:1.8.3.7]
100891240  N-acetylglucosamine-1-phosphotransferase subunits alpha/beta isoform X1 [KO:K08239] [EC:2.7.8.17]
100889027  N-acetylglucosamine-1-phosphotransferase subunit gamma isoform X1 [KO:K10087]
115923534  N-acetylglucosamine-1-phosphotransferase subunit gamma-like isoform X1 [KO:K10087]
586707  N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [KO:K01125] [EC:3.1.4.45]
752960  uncharacterized protein LOC752960 [KO:K01125] [EC:3.1.4.45]
105440095  N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase-like [KO:K01125] [EC:3.1.4.45]
115920328  N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase-like [KO:K01125] [EC:3.1.4.45]
590679  cation-independent mannose-6-phosphate receptor [KO:K06564]
579677  cation-dependent mannose-6-phosphate receptor isoform X1 [KO:K10089]
105439633  uncharacterized protein LOC105439633 [KO:K10089]
100891499  uncharacterized protein LOC100891499 [KO:K10089]
100892614  uncharacterized protein LOC100892614 [KO:K10089]
105438545  cation-dependent mannose-6-phosphate receptor-like [KO:K10089]
115918112  cation-dependent mannose-6-phosphate receptor-like [KO:K10089]
100894011  cation-dependent mannose-6-phosphate receptor [KO:K10089]
591682  clathrin light chain A [KO:K04644]
579533  clathrin heavy chain 1 isoform X1 [KO:K04646]
587976  AP-1 complex subunit gamma-1 isoform X1 [KO:K12391]
767501  AP-1 complex subunit beta-1 [KO:K12392]
584669  AP-1 complex subunit mu-1 isoform X1 [KO:K12393]
115917987  AP-1 complex subunit mu-1 isoform X1 [KO:K12393]
587361  AP-1 complex subunit sigma-2 isoform X3 [KO:K12394]
593367  AP-1 complex subunit sigma-2 isoform X1 [KO:K12394]
763515  AP-3 complex subunit delta-1 isoform X1 [KO:K12396]
584067  AP-3 complex subunit beta-2 [KO:K12397]
115920654  AP-3 complex subunit beta-2-like isoform X1 [KO:K12397]
583454  AP-3 complex subunit mu-2 [KO:K12398]
594488  AP-3 complex subunit sigma-1 [KO:K12399]
591150  AP-4 complex subunit epsilon-1 isoform X1 [KO:K12400]
100891387  AP-4 complex subunit beta-1 [KO:K12401]
576985  AP-4 complex subunit mu-1 [KO:K12402]
100892769  AP-4 complex subunit sigma-1-like [KO:K12403]
115925157  AP-4 complex subunit sigma-like [KO:K12403]
581699  ADP-ribosylation factor-binding protein GGA1 isoform X1 [KO:K12404]
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
spu00511  Other glycan degradation
spu00531  Glycosaminoglycan degradation
spu04130  SNARE interactions in vesicular transport
spu04140  Autophagy - animal
spu04144  Endocytosis
KO pathway
ko04142   
LinkDB

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