KEGG PATHWAY: tsr04142

KEGG

PATHWAY: tsr04142

Entry

tsr04142                    Pathway

Name

Lysosome - Thamnophis sirtalis (common garter snake)

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

Lysosome

Other DBs

GO:

Organism

Thamnophis sirtalis (common garter snake) [GN:tsr]

Gene

FUCA2; plasma alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]

NAGA; alpha-N-acetylgalactosaminidase isoform X1 [KO:K01204] [EC:3.2.1.49]

MCOLN1; mucolipin-1 [KO:K04992]

GLA; alpha-galactosidase A [KO:K01189] [EC:3.2.1.22]

TCIRG1; V-type proton ATPase 116 kDa subunit a isoform 3 isoform X1 [KO:K02154]

AP4B1; AP-4 complex subunit beta-1 [KO:K12401]

CTSE; cathepsin E [KO:K01382] [EC:3.4.23.34]

PLA2G15; group XV phospholipase A2 [KO:K06129] [EC:3.1.1.5]

AP1M2; AP-1 complex subunit mu-2 [KO:K12393]

[KO:K01374] [EC:3.4.22.42]

[KO:K01374] [EC:3.4.22.42]

[KO:K01052] [EC:3.1.1.13]

[KO:K12309] [EC:3.2.1.23]

[KO:K01382] [EC:3.4.23.34]

ATP6V0A1; V-type proton ATPase 116 kDa subunit a isoform 1 isoform X1 [KO:K02154]

NAGLU; alpha-N-acetylglucosaminidase [KO:K01205] [EC:3.2.1.50]

SGSH; N-sulphoglucosamine sulphohydrolase [KO:K01565] [EC:3.10.1.1]

[KO:K01319] [EC:3.4.21.20]

NPC2; epididymal secretory protein E1 [KO:K13443]

AP1G1; AP-1 complex subunit gamma-1 isoform X1 [KO:K12391]

[KO:K01279] [EC:3.4.14.9]

[KO:K01197] [EC:3.2.1.35]

SORT1; sortilin [KO:K12388]

[KO:K01201] [EC:3.2.1.45]

SLC17A5; sialin [KO:K12301]

ATP6V0A4; V-type proton ATPase 116 kDa subunit a isoform 4 [KO:K02154]

LAMP1; lysosome-associated membrane glycoprotein 1 [KO:K06528]

[KO:K01158] [EC:3.1.22.1]

MANBA; beta-mannosidase [KO:K01192] [EC:3.2.1.25]

DMXL1; dmX-like protein 1 [KO:K24155]

[KO:K01137] [EC:3.1.6.14]

GUSB; beta-glucuronidase [KO:K01195] [EC:3.2.1.31]

[KO:K01052] [EC:3.1.1.13]

AP1S3; AP-1 complex subunit sigma-3 [KO:K12395]

ATP6V1H; V-type proton ATPase subunit H [KO:K02144]

PPT1; palmitoyl-protein thioesterase 1 isoform X1 [KO:K01074] [EC:3.1.2.22]

CD63; CD63 antigen [KO:K06497]

ARSB; arylsulfatase B [KO:K01135] [EC:3.1.6.12]

ATP6V0C; V-type proton ATPase 16 kDa proteolipid subunit [KO:K02155]

[KO:K12316] [EC:3.2.1.20]

AP3S1; AP-3 complex subunit sigma-1 isoform X1 [KO:K12399]

[KO:K12373] [EC:3.2.1.52]

GGA1; ADP-ribosylation factor-binding protein GGA1 [KO:K12404]

LAPTM4A; lysosomal-associated transmembrane protein 4A [KO:K12387]

SLC11A2; natural resistance-associated macrophage protein 2 [KO:K21398]

MFSD8; major facilitator superfamily domain-containing protein 8 isoform X1 [KO:K12307]

GM2A; ganglioside GM2 activator [KO:K12383]

CTSS; cathepsin S [KO:K01368] [EC:3.4.22.27]

LGMN; legumain [KO:K01369] [EC:3.4.22.34]

[KO:K01363] [EC:3.4.22.1]

[KO:K01363] [EC:3.4.22.1]

[KO:K01379] [EC:3.4.23.5]

MAN2B1; lysosomal alpha-mannosidase [KO:K12311] [EC:3.2.1.24]

[KO:K01365] [EC:3.4.22.15]

AP3B2; AP-3 complex subunit beta-2 [KO:K12397]

ARSG; arylsulfatase G isoform X1 [KO:K12381] [EC:3.1.6.-]

SCARB2; lysosome membrane protein 2 [KO:K12384]

CLTB; clathrin light chain B [KO:K04645]

NPC1; Niemann-Pick C1 protein isoform X1 [KO:K12385]

IGF2R; cation-independent mannose-6-phosphate receptor [KO:K06564]

IDS; iduronate 2-sulfatase [KO:K01136] [EC:3.1.6.13]

[KO:K01217] [EC:3.2.1.76]

NEU1; sialidase-1 isoform X1 [KO:K01186] [EC:3.2.1.18]

GNPTAB; N-acetylglucosamine-1-phosphotransferase subunits alpha/beta [KO:K08239] [EC:2.7.8.17]

GNPTG; N-acetylglucosamine-1-phosphotransferase subunit gamma isoform X1 [KO:K10087]

CTSD; cathepsin D [KO:K01379] [EC:3.4.23.5]

IDUA; alpha-L-iduronidase [KO:K01217] [EC:3.2.1.76]

HGSNAT; heparan-alpha-glucosaminide N-acetyltransferase [KO:K10532] [EC:2.3.1.78]

AP4S1; AP-4 complex subunit sigma-1 [KO:K12403]

PSAP; prosaposin isoform X1 [KO:K12382]

LAPTM4B; lysosomal-associated transmembrane protein 4B [KO:K12387]

HYAL3; hyaluronidase-3 [KO:K01197] [EC:3.2.1.35]

HYAL2; hyaluronidase-2 [KO:K01197] [EC:3.2.1.35]

HYAL1; hyaluronidase-1 [KO:K01197] [EC:3.2.1.35]

[KO:K01365] [EC:3.4.22.15]

FUCA1; tissue alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]

ATP6V0D2; V-type proton ATPase subunit d 2 [KO:K02146]

[KO:K01204] [EC:3.2.1.49]

GGA3; ADP-ribosylation factor-binding protein GGA3 isoform X1 [KO:K12404]

ATP6V0D1; V-type proton ATPase subunit d 1 [KO:K02146]

AP1S1; AP-1 complex subunit sigma-1A isoform X1 [KO:K12394]

[KO:K01201] [EC:3.2.1.45]

LITAF; lipopolysaccharide-induced tumor necrosis factor-alpha factor [KO:K19363]

GALNS; N-acetylgalactosamine-6-sulfatase [KO:K01132] [EC:3.1.6.4]

[KO:K01197] [EC:3.2.1.35]

ACP2; lysosomal acid phosphatase [KO:K14410] [EC:3.1.3.2]

HEXA; beta-hexosaminidase subunit alpha [KO:K12373] [EC:3.2.1.52]

AP1S2; AP-1 complex subunit sigma-2 isoform X1 [KO:K12394]

GAA; lysosomal alpha-glucosidase [KO:K12316] [EC:3.2.1.20]

ABCB9; ATP-binding cassette sub-family B member 9 [KO:K05656]

AP3D1; AP-3 complex subunit delta-1 isoform X1 [KO:K12396]

CD68; macrosialin [KO:K06501]

[KO:K01371] [EC:3.4.22.38]

[KO:K01197] [EC:3.2.1.35]

AP1M1; AP-1 complex subunit mu-1 [KO:K12393]

ASAH1; acid ceramidase [KO:K12348] [EC:3.5.1.23]

GALC; galactocerebrosidase isoform X1 [KO:K01202] [EC:3.2.1.46]

ATP6V0B; V-type proton ATPase 21 kDa proteolipid subunit [KO:K03661]

GNS; N-acetylglucosamine-6-sulfatase [KO:K01137] [EC:3.1.6.14]

AP4M1; AP-4 complex subunit mu-1 [KO:K12402]

M6PR; cation-dependent mannose-6-phosphate receptor isoform X1 [KO:K10089]

SMPD1; sphingomyelin phosphodiesterase [KO:K12350] [EC:3.1.4.12]

CLTA; clathrin light chain A isoform X1 [KO:K04644]

SUMF1; sulfatase-modifying factor 1 isoform X1 [KO:K13444] [EC:1.8.3.7]

CLN3; battenin [KO:K12389]

NCOA7; nuclear receptor coactivator 7 isoform X1 [KO:K25442]

Compound

ATP

ADP

D-Mannose

D-Mannose 6-phosphate

Reference

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

Authors

Neufeld EF

Title

Lysosomal storage diseases.

Journal

Annu Rev Biochem 60:257-80 (1991)
DOI:10.1146/annurev.bi.60.070191.001353

Reference

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

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

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

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

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

Other glycan degradation

Glycosaminoglycan degradation

SNARE interactions in vesicular transport

Autophagy - animal

Endocytosis

KO pathway

DBGET integrated database retrieval system