KEGG   PATHWAY: rno04142
Entry
rno04142                    Pathway                                
Name
Lysosome - Rattus norvegicus (rat)
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
rno04142  Lysosome
rno04142

Other DBs
GO: 0005764
Organism
Rattus norvegicus (rat) [GN:rno]
Gene
100362547  Ap1g2; adaptor related protein complex 1 subunit gamma 2 [KO:K12391]
116455  Atp6v0a2; V-type proton ATPase 116 kDa subunit a 2 [KO:K02154]
116561  Cltb; clathrin light chain B [KO:K04645]
117037  Spam1; hyaluronidase PH-20 precursor [KO:K01197] [EC:3.2.1.35]
117106  Scarb2; lysosome membrane protein 2 [KO:K12384]
140667  Ap3m2; AP-3 complex subunit mu-2 [KO:K12398]
170667  Atp6v0c; V-type proton ATPase 16 kDa proteolipid subunit c [KO:K02155]
171126  Ap3m1; AP-3 complex subunit mu-1 [KO:K12398]
171293  Ctsd; cathepsin D precursor [KO:K01379] [EC:3.4.23.5]
171494  Ap1g1; AP-1 complex subunit gamma-1 isoform 1 [KO:K12391]
171575  Dnase2; deoxyribonuclease-2-alpha precursor [KO:K01158] [EC:3.1.22.1]
24162  Acp2; lysosomal acid phosphatase isoform 1x precursor [KO:K14410] [EC:3.1.3.2]
24375  Fuca1; tissue alpha-L-fucosidase precursor [KO:K01206] [EC:3.2.1.51]
24434  Gusb; beta-glucuronidase precursor [KO:K01195] [EC:3.2.1.31]
24591  Neu1; sialidase-1 precursor [KO:K01186] [EC:3.2.1.18]
24944  Lamp2; lysosome-associated membrane glycoprotein 2 precursor [KO:K06528]
25055  Lipa; lysosomal acid lipase/cholesteryl ester hydrolase precursor [KO:K01052] [EC:3.1.1.13]
25151  Igf2r; cation-independent mannose-6-phosphate receptor precursor [KO:K06564]
25227  Arsb; arylsulfatase B precursor [KO:K01135] [EC:3.1.6.12]
252929  Ctsz; cathepsin Z precursor [KO:K08568] [EC:3.4.18.1]
25328  Lamp1; lysosome-associated membrane glycoprotein 1 precursor [KO:K06528]
25423  Ctsc; dipeptidyl peptidase 1 precursor [KO:K01275] [EC:3.4.14.1]
25424  Ctse; cathepsin E isoform 1 precursor [KO:K01382] [EC:3.4.23.34]
25425  Ctsh; pro-cathepsin H precursor [KO:K01366] [EC:3.4.22.16]
25524  Psap; prosaposin isoform A preproprotein [KO:K12382]
25697  Ctsl; procathepsin L preproprotein [KO:K01365] [EC:3.4.22.15]
25715  Slc11a2; natural resistance-associated macrophage protein 2 isoform 1 [KO:K21398]
25732  Acp5; tartrate-resistant acid phosphatase type 5 isoform 2 precursor [KO:K14379] [EC:3.1.3.2]
266732  Npc1; NPC intracellular cholesterol transporter 1 precursor [KO:K12385]
282838  Gm2a; ganglioside GM2 activator precursor [KO:K12383]
286898  Npc2; NPC intracellular cholesterol transporter 2 precursor [KO:K13443]
287134  Gnptg; N-acetylglucosamine-1-phosphotransferase subunit gamma precursor [KO:K10087]
287435  Cd68; macrosialin precursor [KO:K06501]
287478  Ctns; cystinosin precursor [KO:K12386]
288371  Mcoln1; mucolipin-1 [KO:K04992]
289720  Psapl1; proactivator polypeptide-like 1 precursor [KO:K12382]
290257  Ctsg; cathepsin G precursor [KO:K01319] [EC:3.4.21.20]
290923  Aga; N(4)-(Beta-N-acetylglucosaminyl)-L-asparaginase precursor [KO:K01444] [EC:3.5.1.26]
29174  Ctsj; cathepsin J precursor [KO:K09599] [EC:3.4.22.-]
29175  Ctsk; cathepsin K precursor [KO:K01371] [EC:3.4.22.38]
29186  Cd63; CD63 antigen [KO:K06497]
291969  Atp6v0d1; V-type proton ATPase subunit d 1 [KO:K02146]
292073  Galns; N-acetylgalactosamine-6-sulfatase precursor [KO:K01132] [EC:3.1.6.4]
292485  Fuca2; plasma alpha-L-fucosidase precursor [KO:K01206] [EC:3.2.1.51]
293455  Gga2; ADP-ribosylation factor-binding protein GGA2 [KO:K12404]
293485  Cln3; battenin [KO:K12389]
293650  Tcirg1; V-type proton ATPase 116 kDa subunit a 3 [KO:K02154]
293676  Ctsw; cathepsin W precursor [KO:K08569] [EC:3.4.22.-]
29411  Ppt1; palmitoyl-protein thioesterase 1 precursor [KO:K01074] [EC:3.1.2.22]
294673  Hexb; beta-hexosaminidase subunit beta precursor [KO:K12373] [EC:3.2.1.52]
296370  Ctsa; lysosomal protective protein precursor [KO:K13289] [EC:3.4.16.5]
29663  Ap1b1; AP-1 complex subunit beta-1 [KO:K12392]
296981  Atp6v0a4; V-type proton ATPase 116 kDa subunit a 4 [KO:K02154]
29757  Atp6v0a1; V-type proton ATPase 116 kDa subunit a 1 [KO:K02154]
297797  Atp6v1h; V-type proton ATPase subunit H isoform 1 [KO:K02144]
297932  Atp6v0d2; V-type proton ATPase subunit d 2 [KO:K02146]
298451  Atp6v0b; V-type proton ATPase 21 kDa proteolipid subunit c'' [KO:K03661]
298875  Laptm4a; lysosomal-associated transmembrane protein 4A [KO:K12387]
299825  Gns; N-acetylglucosamine-6-sulfatase isoform 2 precursor [KO:K01137] [EC:3.1.6.14]
300066  Gga1; ADP-ribosylation factor-binding protein GGA1 isoform 2 [KO:K12404]
300757  Hexa; beta-hexosaminidase subunit alpha precursor [KO:K12373] [EC:3.2.1.52]
300993  Hyal3; hyaluronidase-3 precursor [KO:K01197] [EC:3.2.1.35]
302290  Ap3s1; AP-3 complex subunit sigma-1 isoform 1 [KO:K12399]
302671  Ap1s2; AP-1 complex subunit sigma-2 [KO:K12394]
303631  Arsg; arylsulfatase G precursor [KO:K12381] [EC:3.1.6.-]
303801  Lamp3; lysosome-associated membrane glycoprotein 3 precursor [KO:K06562]
304344  Ap4m1; AP-4 complex subunit mu-1 isoform 1 [KO:K12402]
306128  Cln5; ceroid-lipofuscinosis neuronal protein 5 precursor [KO:K12390]
306332  Ap1m1; AP-1 complex subunit mu-1 [KO:K12393]
306720  Ctsm; cathepsin M precursor [KO:K09600] [EC:3.4.22.-]
307429  Dmxl1; dmX-like protein 1 [KO:K24155]
307901  Meak7; MTOR-associated protein MEAK7 [KO:K27947]
308777  Ap3b2; AP-3 complex subunit beta-2 [KO:K12397]
308909  Smpd1; sphingomyelin phosphodiesterase [KO:K12350] [EC:3.1.4.12]
309969  Ap3b1; AP-3 complex subunit beta-1 [KO:K12397]
310166  Cln5l1; ceroid-lipofuscinosis neuronal protein 5 homolog [KO:K12390]
310746  Ap4b1; AP-4 complex subunit beta-1 [KO:K12401]
310864  Manba; beta-mannosidase precursor [KO:K01192] [EC:3.2.1.25]
311404  Ap4e1; AP-4 complex subunit epsilon-1 [KO:K12400]
312689  M6pr; cation-dependent mannose-6-phosphate receptor precursor [KO:K10089]
314360  Galc; galactocerebrosidase precursor [KO:K01202] [EC:3.2.1.46]
314633  Ap3d1; AP-3 complex subunit delta-1 [KO:K12396]
315047  Laptm4b; lysosomal-associated transmembrane protein 4B [KO:K12387]
315165  Naga; alpha-N-acetylgalactosaminidase precursor [KO:K01204] [EC:3.2.1.49]
315222  Arsa; arylsulfatase A precursor [KO:K01134] [EC:3.1.6.8]
315676  Dmxl2; dmX-like protein 2 isoform X1 [KO:K24155]
316033  Glb1; beta-galactosidase precursor [KO:K12309] [EC:3.2.1.23]
316519  Slc11a1; natural resistance-associated macrophage protein 1 [KO:K12347]
360476  Nagpa; N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [KO:K01125] [EC:3.1.4.45]
360630  Naglu; alpha-N-acetylglucosaminidase precursor [KO:K01205] [EC:3.2.1.50]
360658  Gga3; ADP-ribosylation factor-binding protein GGA3 [KO:K12404]
360785  Ap1s1; adaptor-related protein complex 1, sigma 1 subunit [KO:K12394]
360904  Idua; alpha-L-iduronidase precursor [KO:K01217] [EC:3.2.1.76]
361063  Entpd4; ectonucleoside triphosphate diphosphohydrolase 4 isoform 1 [KO:K12305] [EC:3.6.1.6]
361165  Hgsnat; heparan-alpha-glucosaminide N-acetyltransferase precursor [KO:K10532] [EC:2.3.1.78]
361378  Man2b1; lysosomal alpha-mannosidase precursor [KO:K12311] [EC:3.2.1.24]
361401  Pla2g15; phospholipase A2 group XV precursor [KO:K06129] [EC:3.1.1.5]
361704  Ctsf; cathepsin F precursor [KO:K01373] [EC:3.4.22.41]
361939  Mfsd8; major facilitator superfamily domain-containing protein 8 [KO:K12307]
362409  Sumf1; formylglycine-generating enzyme precursor [KO:K13444] [EC:1.8.3.7]
362865  Gnptab; N-acetylglucosamine-1-phosphate transferase subunits alpha and beta [KO:K08239] [EC:2.7.8.17]
363103  Slc17a5; sialin [KO:K12301]
363494  Gla; alpha-galactosidase A [KO:K01189] [EC:3.2.1.22]
363513  Ids; iduronate 2-sulfatase precursor [KO:K01136] [EC:3.1.6.13]
366618  Ap4s1; AP-4 complex subunit sigma-1 [KO:K12403]
367038  Ap1m2; AP-1 complex subunit mu-2 [KO:K12393]
367166  Hyal1; hyaluronidase-1 isoform 1 precursor [KO:K01197] [EC:3.2.1.35]
367304  Ap1s3; AP-1 complex subunit sigma-3 [KO:K12395]
367562  Gaa; lysosomal alpha-glucosidase precursor [KO:K12316] [EC:3.2.1.20]
404783  Hyal4; hyaluronidase-4 [KO:K01197] [EC:3.2.1.35]
498995  Ncoa7; nuclear receptor coactivator 7 isoform X3 [KO:K25442]
500051  Hyal6; hyaluronoglucosaminidase 6 precursor [KO:K01197] [EC:3.2.1.35]
500052  Hyal5; hyaluronidase PH-20 [KO:K01197] [EC:3.2.1.35]
50654  Ctss; cathepsin S preproprotein [KO:K01368] [EC:3.4.22.27]
54241  Cltc; clathrin heavy chain 1 [KO:K04646]
54398  Ppt2; lysosomal thioesterase PPT2 precursor [KO:K01074] [EC:3.1.2.22]
59296  Dnase2b; deoxyribonuclease-2-beta precursor [KO:K01158] [EC:3.1.22.1]
60575  Napsa; napsin-A precursor [KO:K08565] [EC:3.4.23.-]
63865  Lgmn; legumain precursor [KO:K01369] [EC:3.4.22.34]
63886  Abcb9; ABC-type oligopeptide transporter ABCB9 [KO:K05656]
64468  Hyal2; hyaluronidase-2 precursor [KO:K01197] [EC:3.2.1.35]
64529  Ctsb; cathepsin B preproprotein [KO:K01363] [EC:3.4.22.1]
65161  Litaf; lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [KO:K19363]
66031  Wdr7; WD repeat-containing protein 7 isoform 1 [KO:K24738]
683402  Ap3s2; AP-3 complex subunit sigma-2 [KO:K12399]
684529  Ctso; cathepsin O precursor [KO:K01374] [EC:3.4.22.42]
684536  Gba1; lysosomal acid glucosylceramidase precursor [KO:K01201] [EC:3.2.1.45]
688293  Sgsh; N-sulfoglucosamine sulfohydrolase precursor [KO:K01565] [EC:3.10.1.1]
79248  Abca2; ATP-binding cassette sub-family A member 2 [KO:K05642]
83534  Tpp1; tripeptidyl-peptidase 1 precursor [KO:K01279] [EC:3.4.14.9]
83576  Sort1; sortilin precursor [KO:K12388]
83615  Atp6ap1; V-type proton ATPase subunit S1 precursor [KO:K03662]
83689  Cd164; sialomucin core protein 24 precursor [KO:K06546]
83800  Clta; clathrin light chain A [KO:K04644]
84431  Asah1; acid ceramidase precursor [KO:K12348] [EC:3.5.1.23]
89783  Laptm5; lysosomal-associated transmembrane protein 5 [KO:K12387]
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
rno00511  Other glycan degradation
rno00531  Glycosaminoglycan degradation
rno04130  SNARE interactions in vesicular transport
rno04140  Autophagy - animal
rno04144  Endocytosis
KO pathway
ko04142   

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