KEGG   PATHWAY: mmer04142
Entry
mmer04142                   Pathway                                
Name
Lysosome - Mercenaria mercenaria (northern quahog)
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
mmer04142  Lysosome
mmer04142

Other DBs
GO: 0005764
Organism
Mercenaria mercenaria (northern quahog) [GN:mmer]
Gene
123560057  V-type proton ATPase 116 kDa subunit a 1-like isoform X1 [KO:K02154]
123563136  V-type proton ATPase 116 kDa subunit a 1-like isoform X1 [KO:K02154]
123550569  V-type proton ATPase subunit d-like [KO:K02146]
123540245  V-type proton ATPase subunit H-like [KO:K02144]
123528606  V-type proton ATPase subunit S1-like [KO:K03662]
128556890  V-type proton ATPase 16 kDa proteolipid subunit c-like [KO:K02155]
128556898  V-type proton ATPase 16 kDa proteolipid subunit c-like [KO:K02155]
128555501  V-type proton ATPase 21 kDa proteolipid subunit c''-like [KO:K03661]
123566068  dmX-like protein 2 isoform X2 [KO:K24155]
123549386  WD repeat-containing protein 7-like isoform X1 [KO:K24738]
123543400  nuclear receptor coactivator 7-like isoform X1 [KO:K25442]
123548864  lysosomal protective protein-like isoform X1 [KO:K13289] [EC:3.4.16.5]
123540194  cathepsin B-like isoform X2 [KO:K01363] [EC:3.4.22.1]
123528583  dipeptidyl peptidase 1-like [KO:K01275] [EC:3.4.14.1]
123539634  dipeptidyl peptidase 1-like [KO:K01275] [EC:3.4.14.1]
123537379  lysosomal aspartic protease-like isoform X1 [KO:K01379] [EC:3.4.23.5]
123527709  cysteine proteinase 1-like [KO:K01373] [EC:3.4.22.41]
123566447  uncharacterized protein LOC123566447 [KO:K01373] [EC:3.4.22.41]
123533619  procathepsin L-like [KO:K01371] [EC:3.4.22.38]
123533940  procathepsin L-like [KO:K01371] [EC:3.4.22.38]
123534315  procathepsin L-like [KO:K01371] [EC:3.4.22.38]
123556631  cathepsin K-like [KO:K01371] [EC:3.4.22.38]
123556894  cystein proteinase inhibitor protein salarin-like [KO:K01365] [EC:3.4.22.15]
123549310  procathepsin L-like [KO:K01365] [EC:3.4.22.15]
123549311  cathepsin 8-like [KO:K01365] [EC:3.4.22.15]
123549530  procathepsin L-like [KO:K01365] [EC:3.4.22.15]
123552268  procathepsin L-like [KO:K01365] [EC:3.4.22.15]
123541845  procathepsin L-like [KO:K01365] [EC:3.4.22.15]
123552269  procathepsin L-like [KO:K01365] [EC:3.4.22.15]
123542259  procathepsin L-like [KO:K01365] [EC:3.4.22.15]
123542312  cathepsin L-like [KO:K01365] [EC:3.4.22.15]
123542545  cathepsin L-like [KO:K01365] [EC:3.4.22.15]
123542641  procathepsin L-like [KO:K01365] [EC:3.4.22.15]
123542652  procathepsin L-like [KO:K01365] [EC:3.4.22.15]
123542666  procathepsin L-like [KO:K01365] [EC:3.4.22.15]
123542787  procathepsin L-like [KO:K01365] [EC:3.4.22.15]
123542922  procathepsin L-like [KO:K01365] [EC:3.4.22.15]
123556885  cathepsin O-like [KO:K01374] [EC:3.4.22.42]
123548727  procathepsin L-like [KO:K01375] [EC:3.4.22.43]
123549029  cathepsin Z-like [KO:K08568] [EC:3.4.18.1]
123557208  beta-galactosidase-like isoform X1 [KO:K12309] [EC:3.2.1.23]
123564304  lysosomal alpha-glucosidase-like isoform X1 [KO:K12316] [EC:3.2.1.20]
123564789  lysosomal alpha-glucosidase-like isoform X1 [KO:K12316] [EC:3.2.1.20]
123523386  lysosomal acid glucosylceramidase-like [KO:K01201] [EC:3.2.1.45]
123524672  lysosomal acid glucosylceramidase-like [KO:K01201] [EC:3.2.1.45]
123524673  lysosomal acid glucosylceramidase-like [KO:K01201] [EC:3.2.1.45]
123524675  lysosomal acid glucosylceramidase-like [KO:K01201] [EC:3.2.1.45]
123547093  alpha-L-iduronidase-like [KO:K01217] [EC:3.2.1.76]
123556288  alpha-galactosidase A-like [KO:K01204] [EC:3.2.1.49]
123556509  alpha-N-acetylgalactosaminidase-like isoform X2 [KO:K01204] [EC:3.2.1.49]
123556588  alpha-N-acetylgalactosaminidase-like [KO:K01204] [EC:3.2.1.49]
123557012  alpha-N-acetylgalactosaminidase-like [KO:K01204] [EC:3.2.1.49]
123557021  alpha-N-acetylgalactosaminidase-like [KO:K01204] [EC:3.2.1.49]
123557150  alpha-N-acetylgalactosaminidase-like isoform X1 [KO:K01204] [EC:3.2.1.49]
123557964  alpha-N-acetylgalactosaminidase-like [KO:K01204] [EC:3.2.1.49]
123557151  alpha-N-acetylgalactosaminidase-like [KO:K01204] [EC:3.2.1.49]
123524952  alpha-N-acetylglucosaminidase-like isoform X1 [KO:K01205] [EC:3.2.1.50]
123524953  alpha-N-acetylglucosaminidase-like isoform X2 [KO:K01205] [EC:3.2.1.50]
123546698  galactocerebrosidase-like isoform X1 [KO:K01202] [EC:3.2.1.46]
123546785  galactocerebrosidase-like isoform X1 [KO:K01202] [EC:3.2.1.46]
123533402  beta-glucuronidase-like [KO:K01195] [EC:3.2.1.31]
123533553  beta-glucuronidase-like isoform X1 [KO:K01195] [EC:3.2.1.31]
123529957  alpha-L-fucosidase-like isoform X3 [KO:K01206] [EC:3.2.1.51]
123566711  beta-hexosaminidase-like [KO:K12373] [EC:3.2.1.52]
123522996  beta-hexosaminidase subunit beta-like isoform X1 [KO:K12373] [EC:3.2.1.52]
123536141  beta-hexosaminidase-like [KO:K12373] [EC:3.2.1.52]
123536570  beta-hexosaminidase-like [KO:K12373] [EC:3.2.1.52]
123549776  beta-hexosaminidase subunit alpha-like [KO:K12373] [EC:3.2.1.52]
123549777  beta-hexosaminidase subunit beta-like [KO:K12373] [EC:3.2.1.52]
123528490  beta-hexosaminidase-like [KO:K12373] [EC:3.2.1.52]
123541004  beta-hexosaminidase-like [KO:K12373] [EC:3.2.1.52]
123530877  beta-hexosaminidase-like [KO:K12373] [EC:3.2.1.52]
123530878  N,N'-diacetylchitobiase-like [KO:K12373] [EC:3.2.1.52]
123566078  beta-hexosaminidase subunit alpha-like isoform X1 [KO:K12373] [EC:3.2.1.52]
123559986  beta-mannosidase-like isoform X1 [KO:K01192] [EC:3.2.1.25]
123562029  lysosomal alpha-mannosidase-like isoform X1 [KO:K12311] [EC:3.2.1.24]
123562785  lysosomal alpha-mannosidase-like [KO:K12311] [EC:3.2.1.24]
123526145  hyaluronidase-1-like [KO:K01197] [EC:3.2.1.35]
123526146  hyaluronidase-1-like isoform X1 [KO:K01197] [EC:3.2.1.35]
123533174  arylsulfatase B-like [KO:K01135] [EC:3.1.6.12]
123524425  arylsulfatase B-like [KO:K01135] [EC:3.1.6.12]
123524426  arylsulfatase B-like [KO:K01135] [EC:3.1.6.12]
123535271  arylsulfatase J-like [KO:K01135] [EC:3.1.6.12]
123536045  arylsulfatase B-like [KO:K01135] [EC:3.1.6.12]
123559437  arylsulfatase B-like isoform X1 [KO:K01135] [EC:3.1.6.12]
123559558  arylsulfatase B-like isoform X1 [KO:K01135] [EC:3.1.6.12]
123527601  arylsulfatase B-like [KO:K01135] [EC:3.1.6.12]
123529033  arylsulfatase B-like [KO:K01135] [EC:3.1.6.12]
123529331  arylsulfatase B-like [KO:K01135] [EC:3.1.6.12]
123554240  arylsulfatase B-like isoform X1 [KO:K01135] [EC:3.1.6.12]
123554874  arylsulfatase B-like [KO:K01135] [EC:3.1.6.12]
123548759  N-acetylgalactosamine-6-sulfatase-like isoform X1 [KO:K01132] [EC:3.1.6.4]
128553519  N-acetylglucosamine-6-sulfatase-like [KO:K01137] [EC:3.1.6.14]
123545463  iduronate 2-sulfatase-like [KO:K01136] [EC:3.1.6.13]
123546109  iduronate 2-sulfatase-like [KO:K01136] [EC:3.1.6.13]
123556889  iduronate 2-sulfatase-like isoform X1 [KO:K01136] [EC:3.1.6.13]
123562141  iduronate 2-sulfatase-like [KO:K01136] [EC:3.1.6.13]
123562143  iduronate 2-sulfatase-like [KO:K01136] [EC:3.1.6.13]
123541840  iduronate 2-sulfatase-like [KO:K01136] [EC:3.1.6.13]
123542263  iduronate 2-sulfatase-like [KO:K01136] [EC:3.1.6.13]
128549368  iduronate 2-sulfatase-like [KO:K01136] [EC:3.1.6.13]
123524313  N-sulphoglucosamine sulphohydrolase-like isoform X1 [KO:K01565] [EC:3.10.1.1]
123564697  N-sulphoglucosamine sulphohydrolase-like [KO:K01565] [EC:3.10.1.1]
123564940  lysosomal acid lipase/cholesteryl ester hydrolase-like [KO:K01052] [EC:3.1.1.13]
123549791  phospholipase A2 group XV-like [KO:K06129] [EC:3.1.1.5]
123549792  phospholipase A2 group XV-like [KO:K06129] [EC:3.1.1.5]
123561497  plancitoxin-1-like [KO:K01158] [EC:3.1.22.1]
123522827  prostatic acid phosphatase-like [KO:K14410] [EC:3.1.3.2]
123531243  lysosomal acid phosphatase-like [KO:K14410] [EC:3.1.3.2]
123523344  tartrate-resistant acid phosphatase type 5-like [KO:K14379] [EC:3.1.3.2]
123523983  tartrate-resistant acid phosphatase type 5-like [KO:K14379] [EC:3.1.3.2]
123523985  tartrate-resistant acid phosphatase type 5-like [KO:K14379] [EC:3.1.3.2]
123524366  LOW QUALITY PROTEIN: tartrate-resistant acid phosphatase type 5-like [KO:K14379] [EC:3.1.3.2]
123533072  sphingomyelin phosphodiesterase-like [KO:K12350] [EC:3.1.4.12]
123556325  acid ceramidase-like [KO:K12348] [EC:3.5.1.23]
123556328  acid ceramidase-like [KO:K12348] [EC:3.5.1.23]
123556959  N(4)-(Beta-N-acetylglucosaminyl)-L-asparaginase- like [KO:K01444] [EC:3.5.1.26]
123556960  N(4)-(Beta-N-acetylglucosaminyl)-L-asparaginase- like [KO:K01444] [EC:3.5.1.26]
123558012  putative N(4)-(beta-N-acetylglucosaminyl)-L-asparaginase GE19290 [KO:K01444] [EC:3.5.1.26]
123522908  uncharacterized protein LOC123522908 isoform X1 [KO:K12383]
123523068  ganglioside GM2 activator-like [KO:K12383]
123557113  ganglioside GM2 activator-like [KO:K12383]
123557115  ganglioside GM2 activator-like [KO:K12383]
123557116  ganglioside GM2 activator-like [KO:K12383]
123557120  ganglioside GM2 activator-like isoform X1 [KO:K12383]
123557121  ganglioside GM2 activator-like [KO:K12383]
123557122  ganglioside GM2 activator-like isoform X1 [KO:K12383]
123557125  ganglioside GM2 activator-like isoform X1 [KO:K12383]
123557398  ganglioside GM2 activator-like isoform X1 [KO:K12383]
123557962  uncharacterized protein LOC123557962 [KO:K12383]
123558375  ganglioside GM2 activator-like [KO:K12383]
123526225  ganglioside GM2 activator-like [KO:K12383]
123552282  uncharacterized protein LOC123552282 isoform X1 [KO:K12383]
123552465  ganglioside GM2 activator-like [KO:K12383]
123553281  uncharacterized protein LOC123553281 [KO:K12383]
123553582  ganglioside GM2 activator-like [KO:K12383]
123553583  ganglioside GM2 activator-like [KO:K12383]
123553584  ganglioside GM2 activator-like [KO:K12383]
123565869  ganglioside GM2 activator-like [KO:K12383]
123565872  ganglioside GM2 activator-like [KO:K12383]
123565873  ganglioside GM2 activator-like [KO:K12383]
123557250  lysosomal thioesterase PPT2-A-like isoform X1 [KO:K01074] [EC:3.1.2.22]
123524924  palmitoyl-protein thioesterase 1-like isoform X1 [KO:K01074] [EC:3.1.2.22]
123562734  lysosomal thioesterase PPT2-A-like [KO:K01074] [EC:3.1.2.22]
123555152  uncharacterized protein LOC123555152 isoform X1 [KO:K06528]
123556647  uncharacterized protein LOC123556647 [KO:K06528]
123553938  lysosome-associated membrane glycoprotein 1-like [KO:K06528]
123554934  lysosome-associated membrane glycoprotein 1-like [KO:K06528]
123539060  CD63 antigen-like [KO:K06497]
128550653  CD63 antigen-like [KO:K06497]
123557503  lysosome membrane protein 2-like [KO:K12384]
123525865  protein patched homolog 1-like isoform X1 [KO:K12385]
123540402  NPC intracellular cholesterol transporter 1-like [KO:K12385]
123545691  NPC intracellular cholesterol transporter 2-like [KO:K13443]
123545786  NPC intracellular cholesterol transporter 2-like [KO:K13443]
123531721  uncharacterized protein LOC123531721 [KO:K13443]
123532151  ecdysteroid-regulated 16 kDa protein-like [KO:K13443]
123532843  NPC intracellular cholesterol transporter 2-like isoform X1 [KO:K13443]
123544270  NPC intracellular cholesterol transporter 2-like [KO:K13443]
123525214  cystinosin-like isoform X1 [KO:K12386]
123556080  sialin-like [KO:K12301]
123534184  uncharacterized transporter slc-17.2-like isoform X1 [KO:K12301]
123547118  uncharacterized transporter slc-17.2-like isoform X2 [KO:K12301]
123548083  sialin-like [KO:K12301]
123526123  sialin-like [KO:K12301]
123526315  sialin-like [KO:K12301]
123527219  sialin-like [KO:K12301]
123561827  sialin-like isoform X1 [KO:K12301]
123528319  sialin-like [KO:K12301]
123562096  sialin-like isoform X1 [KO:K12301]
128549561  sialin-like [KO:K12301]
128549567  sialin-like isoform X1 [KO:K12301]
123561460  natural resistance-associated macrophage protein 2-like isoform X1 [KO:K21398]
123531811  natural resistance-associated macrophage protein 2-like isoform X1 [KO:K21398]
123525059  lysosomal-associated transmembrane protein 4A-like [KO:K12387]
123525550  ATP-binding cassette sub-family A member 2-like isoform X1 [KO:K05642]
123538262  ATP-binding cassette sub-family A member 2-like isoform X1 [KO:K05642]
123533140  ABC-type oligopeptide transporter ABCB9-like [KO:K05656]
123534768  ABC-type oligopeptide transporter ABCB9-like [KO:K05656]
123535370  ABC-type oligopeptide transporter ABCB9-like isoform X1 [KO:K05656]
123551649  sialomucin core protein 24-like [KO:K06546]
123552564  integumentary mucin A.1-like isoform X1 [KO:K06546]
123529215  sortilin-like [KO:K12388]
123529672  sortilin-like isoform X5 [KO:K12388]
123536707  battenin-like isoform X1 [KO:K12389]
123556533  ceroid-lipofuscinosis neuronal protein 5 homolog [KO:K12390]
123557841  major facilitator superfamily domain-containing protein 8-like isoform X1 [KO:K12307]
123558611  major facilitator superfamily domain-containing protein 8-like [KO:K12307]
123526283  uncharacterized protein LOC123526283 [KO:K12307]
123564591  heparan-alpha-glucosaminide N-acetyltransferase-like isoform X5 [KO:K10532] [EC:2.3.1.78]
123564772  heparan-alpha-glucosaminide N-acetyltransferase-like [KO:K10532] [EC:2.3.1.78]
123531661  heparan-alpha-glucosaminide N-acetyltransferase-like isoform X1 [KO:K10532] [EC:2.3.1.78]
123529982  formylglycine-generating enzyme-like [KO:K13444] [EC:1.8.3.7]
123536730  N-acetylglucosamine-1-phosphotransferase subunits alpha/beta-like isoform X1 [KO:K08239] [EC:2.7.8.17]
123550858  N-acetylglucosamine-1-phosphotransferase subunits alpha/beta-like [KO:K08239] [EC:2.7.8.17]
123564953  N-acetylglucosamine-1-phosphotransferase subunit gamma-like [KO:K10087]
123548672  N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase-like [KO:K01125] [EC:3.1.4.45]
123552344  cation-independent mannose-6-phosphate receptor-like isoform X1 [KO:K06564]
123526485  cation-dependent mannose-6-phosphate receptor-like [KO:K10089]
123532632  cation-dependent mannose-6-phosphate receptor-like [KO:K10089]
123540633  clathrin light chain B-like isoform X1 [KO:K04645]
123534478  clathrin heavy chain 1 isoform X1 [KO:K04646]
123549419  AP-1 complex subunit gamma-1-like isoform X1 [KO:K12391]
123533744  AP-1 complex subunit beta-1-like [KO:K12392]
123525013  AP-1 complex subunit mu-1 isoform X1 [KO:K12393]
123525015  AP-1 complex subunit mu-1-like [KO:K12393]
123555455  AP-1 complex subunit sigma-2 isoform X1 [KO:K12394]
123525106  LOW QUALITY PROTEIN: AP-3 complex subunit delta-1-like [KO:K12396]
123537834  AP-3 complex subunit beta-2-like isoform X1 [KO:K12397]
123523115  LOW QUALITY PROTEIN: AP-3 complex subunit mu-2-like [KO:K12398]
123564455  AP-3 complex subunit sigma-1-like isoform X1 [KO:K12399]
123557463  AP-4 complex subunit epsilon-1-like isoform X1 [KO:K12400]
123550789  AP-4 complex subunit beta-1-like isoform X1 [KO:K12401]
123535709  AP-4 complex subunit mu-1-like isoform X1 [KO:K12402]
123539440  AP-4 complex subunit sigma-1-like isoform X3 [KO:K12403]
123563839  ADP-ribosylation factor-binding protein GGA1-like isoform X1 [KO:K12404]
123550303  uncharacterized protein DDB_G0285917-like [KO:K04992]
123549421  lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [KO:K19363]
123563827  lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog isoform X5 [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
mmer00511  Other glycan degradation
mmer00531  Glycosaminoglycan degradation
mmer04130  SNARE interactions in vesicular transport
mmer04140  Autophagy - animal
mmer04144  Endocytosis
KO pathway
ko04142   
LinkDB

DBGET integrated database retrieval system