KEGG   PATHWAY: sund04142
Entry
sund04142                   Pathway                                
Name
Lysosome - Sceloporus undulatus (fence lizard)
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
sund04142  Lysosome
sund04142

Other DBs
GO: 0005764
Organism
Sceloporus undulatus (fence lizard) [GN:sund]
Gene
121914148  PLA2G15; phospholipase A2 group XV [KO:K06129] [EC:3.1.1.5]
121914220  LITAF; lipopolysaccharide-induced tumor necrosis factor-alpha factor isoform X1 [KO:K19363]
121914304  ATP6V0C; V-type proton ATPase 16 kDa proteolipid subunit [KO:K02155]
121914361  [KO:K12316] [EC:3.2.1.20]
121914571  GGA2; ADP-ribosylation factor-binding protein GGA2 isoform X1 [KO:K12404]
121914634  GNPTG; N-acetylglucosamine-1-phosphotransferase subunit gamma [KO:K10087]
121914721  [KO:K01204] [EC:3.2.1.49]
121914752  AP1G1; AP-1 complex subunit gamma-1 isoform X1 [KO:K12391]
121914842  ATP6V0D1; V-type proton ATPase subunit d 1 [KO:K02146]
121914936  MEAK7; MTOR-associated protein MEAK7 [KO:K27947]
121914957  GALNS; N-acetylgalactosamine-6-sulfatase isoform X1 [KO:K01132] [EC:3.1.6.4]
121915175  FUCA1; tissue alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]
121915427  PPT1; palmitoyl-protein thioesterase 1 [KO:K01074] [EC:3.1.2.22]
121915537  CTSW; cathepsin W [KO:K08569] [EC:3.4.22.-]
121915910  CTSF; cathepsin F [KO:K01373] [EC:3.4.22.41]
121916116  [KO:K01201] [EC:3.2.1.45]
121916182  [KO:K01201] [EC:3.2.1.45]
121916183  [KO:K01201] [EC:3.2.1.45]
121916254  CTSS; cathepsin S [KO:K01368] [EC:3.4.22.27]
121916255  CTSK; cathepsin K [KO:K01371] [EC:3.4.22.38]
121916267  GALC; LOW QUALITY PROTEIN: galactocerebrosidase [KO:K01202] [EC:3.2.1.46]
121916492  ATP6V0A2; V-type proton ATPase 116 kDa subunit a2 [KO:K02154]
121916526  CLTCL1; clathrin heavy chain 2 isoform X1 [KO:K04646]
121916604  [KO:K12392]
121916732  ABCB9; ABC-type oligopeptide transporter ABCB9 [KO:K05656]
121916855  CTNS; cystinosin [KO:K12386]
121916873  CLTC; clathrin heavy chain 1 isoform X1 [KO:K04646]
121916933  GUSB; beta-glucuronidase [KO:K01195] [EC:3.2.1.31]
121917427  [KO:K12385]
121917690  [KO:K12393]
121917724  [KO:K12393]
121917809  [KO:K08569] [EC:3.4.22.-]
121918524  AP4S1; AP-4 complex subunit sigma-1 [KO:K12403]
121919442  LGMN; legumain [KO:K01369] [EC:3.4.22.34]
121919595  NPC2; NPC intracellular cholesterol transporter 2 [KO:K13443]
121919628  FUCA2; plasma alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]
121919706  SLC11A1; natural resistance-associated macrophage protein 1 [KO:K12347]
121920603  AP1M2; AP-1 complex subunit mu-2 [KO:K12393]
121920659  DNASE2; deoxyribonuclease-2-alpha isoform X1 [KO:K01158] [EC:3.1.22.1]
121920671  [KO:K01444] [EC:3.5.1.26]
121920736  DMXL1; dmX-like protein 1 isoform X1 [KO:K24155]
121920860  NCOA7; nuclear receptor coactivator 7 isoform X1 [KO:K25442]
121920962  AP3B1; AP-3 complex subunit beta-1 isoform X1 [KO:K12397]
121921021  HEXB; LOW QUALITY PROTEIN: beta-hexosaminidase subunit beta [KO:K12373] [EC:3.2.1.52]
121921054  MAN2B1; LOW QUALITY PROTEIN: lysosomal alpha-mannosidase [KO:K12311] [EC:3.2.1.24]
121921096  SUMF1; formylglycine-generating enzyme isoform X1 [KO:K13444] [EC:1.8.3.7]
121921109  CD63; CD63 antigen [KO:K06497]
121921131  SLC11A2; natural resistance-associated macrophage protein 2 isoform X1 [KO:K21398]
121921135  M6PR; cation-dependent mannose-6-phosphate receptor [KO:K10089]
121921223  HYAL1; hyaluronidase-1 isoform X1 [KO:K01197] [EC:3.2.1.35]
121921224  HYAL3; hyaluronidase-3 [KO:K01197] [EC:3.2.1.35]
121921283  PPT2; lysosomal thioesterase PPT2 [KO:K01074] [EC:3.1.2.22]
121921400  SGSH; N-sulphoglucosamine sulphohydrolase isoform X1 [KO:K01565] [EC:3.10.1.1]
121921404  CLTA; LOW QUALITY PROTEIN: clathrin light chain A [KO:K04644]
121921516  ARSG; arylsulfatase G isoform X1 [KO:K12381] [EC:3.1.6.-]
121921755  GGA3; ADP-ribosylation factor-binding protein GGA3 isoform X1 [KO:K12404]
121922090  AP3S1; AP-3 complex subunit sigma-1 isoform X1 [KO:K12399]
121922224  WDR7; WD repeat-containing protein 7 isoform X1 [KO:K24738]
121922372  GAA; lysosomal alpha-glucosidase [KO:K12316] [EC:3.2.1.20]
121922382  MCOLN1; mucolipin-1 isoform X1 [KO:K04992]
121922666  NEU1; sialidase-1 [KO:K01186] [EC:3.2.1.18]
121922667  [KO:K01197] [EC:3.2.1.35]
121922698  ATP6AP1; V-type proton ATPase subunit S1 [KO:K03662]
121922902  CTSL; procathepsin L [KO:K01365] [EC:3.4.22.15]
121922935  HYAL2; hyaluronidase-2 [KO:K01197] [EC:3.2.1.35]
121923106  GM2A; ganglioside GM2 activator [KO:K12383]
121923386  CLTB; clathrin light chain B isoform X1 [KO:K04645]
121923514  ARSB; arylsulfatase B [KO:K01135] [EC:3.1.6.12]
121923576  IDUA; alpha-L-iduronidase isoform X1 [KO:K01217] [EC:3.2.1.76]
121924398  ACP5; tartrate-resistant acid phosphatase type 5 [KO:K14379] [EC:3.1.3.2]
121924681  [KO:K01052] [EC:3.1.1.13]
121924782  AP1S2; AP-1 complex subunit sigma-2 isoform X1 [KO:K12394]
121924849  LAMP1; lysosome-associated membrane glycoprotein 1 [KO:K06528]
121925067  SMPD1; sphingomyelin phosphodiesterase [KO:K12350] [EC:3.1.4.12]
121925165  CTSC; LOW QUALITY PROTEIN: dipeptidyl peptidase 1 [KO:K01275] [EC:3.4.14.1]
121925222  LAMP3; lysosome-associated membrane glycoprotein 3 [KO:K06562]
121925331  [KO:K01052] [EC:3.1.1.13]
121925473  [KO:K12387]
121925530  AP3M1; AP-3 complex subunit mu-1 [KO:K12398]
121925784  [KO:K01052] [EC:3.1.1.13]
121925876  [KO:K10532] [EC:2.3.1.78]
121925896  [KO:K01052] [EC:3.1.1.13]
121926149  [KO:K13289] [EC:3.4.16.5]
121926463  [KO:K12382]
121926555  AP1S3; AP-1 complex subunit sigma-3 isoform X1 [KO:K12395]
121926674  CLN5; ceroid-lipofuscinosis neuronal protein 5 isoform X1 [KO:K12390]
121926839  [KO:K01052] [EC:3.1.1.13]
121927011  [KO:K01052] [EC:3.1.1.13]
121927268  [KO:K12382]
121927332  [KO:K12307]
121927871  AP4M1; AP-4 complex subunit mu-1 isoform X1 [KO:K12402]
121928250  [KO:K08568] [EC:3.4.18.1]
121928273  IGF2R; LOW QUALITY PROTEIN: cation-independent mannose-6-phosphate receptor [KO:K06564]
121928274  SORT1; sortilin isoform X1 [KO:K12388]
121928348  AP4B1; AP-4 complex subunit beta-1 isoform X1 [KO:K12401]
121928643  [KO:K08568] [EC:3.4.18.1]
121928644  [KO:K08568] [EC:3.4.18.1]
121928645  [KO:K08568] [EC:3.4.18.1]
121928845  ATP6V1H; V-type proton ATPase subunit H isoform X1 [KO:K02144]
121928915  [KO:K08568] [EC:3.4.18.1]
121928933  ATP6V0D2; V-type proton ATPase subunit d 2 [KO:K02146]
121928938  [KO:K04992]
121928967  CTSE; cathepsin E [KO:K01382] [EC:3.4.23.34]
121929405  LAPTM4B; lysosomal-associated transmembrane protein 4B [KO:K12387]
121929867  CTSA; lysosomal protective protein [KO:K13289] [EC:3.4.16.5]
121929999  DNASE2B; deoxyribonuclease-2-beta [KO:K01158] [EC:3.1.22.1]
121930087  [KO:K08568] [EC:3.4.18.1]
121930097  ATP6V0B; V-type proton ATPase 21 kDa proteolipid subunit isoform X1 [KO:K03661]
121930605  [KO:K06497]
121930659  SCARB2; lysosome membrane protein 2 isoform X1 [KO:K12384]
121930837  NAGA; alpha-N-acetylgalactosaminidase [KO:K01204] [EC:3.2.1.49]
121931050  MFSD8; major facilitator superfamily domain-containing protein 8 isoform X1 [KO:K12307]
121931257  CTSB; cathepsin B isoform X1 [KO:K01363] [EC:3.4.22.1]
121931278  [KO:K01382] [EC:3.4.23.34]
121931370  GNPTAB; N-acetylglucosamine-1-phosphotransferase subunits alpha/beta isoform X1 [KO:K08239] [EC:2.7.8.17]
121931416  MANBA; beta-mannosidase isoform X1 [KO:K01192] [EC:3.2.1.25]
121931449  [KO:K03662]
121931473  AGA; N(4)-(beta-N-acetylglucosaminyl)-L-asparaginase [KO:K01444] [EC:3.5.1.26]
121931496  GGA1; ADP-ribosylation factor-binding protein GGA1 [KO:K12404]
121931527  CTSO; cathepsin O isoform X1 [KO:K01374] [EC:3.4.22.42]
121931620  GNS; N-acetylglucosamine-6-sulfatase [KO:K01137] [EC:3.1.6.14]
121931642  [KO:K01197] [EC:3.2.1.35]
121931643  [KO:K01197] [EC:3.2.1.35]
121931689  ASAH1; LOW QUALITY PROTEIN: acid ceramidase [KO:K12348] [EC:3.5.1.23]
121932057  ATP6V0A4; V-type proton ATPase 116 kDa subunit a isoform X1 [KO:K02154]
121932191  ARSA; arylsulfatase A [KO:K01134] [EC:3.1.6.8]
121932502  DMXL2; dmX-like protein 2 isoform X1 [KO:K24155]
121932987  HGSNAT; heparan-alpha-glucosaminide N-acetyltransferase isoform X1 [KO:K10532] [EC:2.3.1.78]
121933119  CTSH; pro-cathepsin H isoform X1 [KO:K01366] [EC:3.4.22.16]
121933449  AP3M2; AP-3 complex subunit mu-2 [KO:K12398]
121933944  CD68; LOW QUALITY PROTEIN: macrosialin [KO:K06528]
121933966  AP1S1; AP-1 complex subunit sigma-1A [KO:K12394]
121934070  ATP6V0A1; V-type proton ATPase 116 kDa subunit a1 isoform X1 [KO:K02154]
121934257  [KO:K01379] [EC:3.4.23.5]
121934410  AP4E1; AP-4 complex subunit epsilon-1 [KO:K12400]
121934506  NAGLU; alpha-N-acetylglucosaminidase [KO:K01205] [EC:3.2.1.50]
121934559  [KO:K01137] [EC:3.1.6.14]
121934573  GLB1; beta-galactosidase isoform X1 [KO:K12309] [EC:3.2.1.23]
121934799  HEXA; beta-hexosaminidase subunit alpha isoform X1 [KO:K12373] [EC:3.2.1.52]
121935050  ENTPD4; ectonucleoside triphosphate diphosphohydrolase 4 isoform X1 [KO:K12305] [EC:3.6.1.6]
121935167  AP1G2; AP-1 complex subunit gamma-like 2 [KO:K12391]
121935283  AP3B2; AP-3 complex subunit beta-2 isoform X1 [KO:K12397]
121935379  SLC17A5; LOW QUALITY PROTEIN: sialin [KO:K12301]
121935400  CLN3; battenin [KO:K12389]
121935981  [KO:K01365] [EC:3.4.22.15]
121935996  ABCA2; ATP-binding cassette sub-family A member 2 isoform X1 [KO:K05642]
121936087  TCIRG1; V-type proton ATPase 116 kDa subunit a3 isoform X1 [KO:K02154]
121936298  LAMP2; lysosome-associated membrane glycoprotein 2 isoform X1 [KO:K06528]
121936543  [KO:K01365] [EC:3.4.22.15]
121936732  [KO:K01319] [EC:3.4.21.20]
121936744  GLA; alpha-galactosidase A [KO:K01189] [EC:3.2.1.22]
121936805  [KO:K01319] [EC:3.4.21.20]
121936820  CTSD; cathepsin D [KO:K01379] [EC:3.4.23.5]
121937054  ACP2; lysosomal acid phosphatase [KO:K14410] [EC:3.1.3.2]
121937055  AP3D1; AP-3 complex subunit delta-1 isoform X1 [KO:K12396]
121937120  LAPTM4A; lysosomal-associated transmembrane protein 4A [KO:K12387]
121937301  CD164; sialomucin core protein 24 [KO:K06546]
121937360  IDS; iduronate 2-sulfatase isoform X1 [KO:K01136] [EC:3.1.6.13]
121937446  NAGPA; N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase isoform X1 [KO:K01125] [EC:3.1.4.45]
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 22:339-352 (2022)
DOI:10.1038/s41577-021-00626-8
Related
pathway
sund00511  Other glycan degradation
sund00531  Glycosaminoglycan degradation
sund04130  SNARE interactions in vesicular transport
sund04140  Autophagy - animal
sund04144  Endocytosis
KO pathway
ko04142   

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