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
29757  Atp6v0a1; V-type proton ATPase 116 kDa subunit a1 [KO:K02154]
296981  Atp6v0a4; V-type proton ATPase 116 kDa subunit a [KO:K02154]
293650  Tcirg1; V-type proton ATPase 116 kDa subunit a [KO:K02154]
116455  Atp6v0a2; V-type proton ATPase 116 kDa subunit a [KO:K02154]
291969  Atp6v0d1; V-type proton ATPase subunit d 1 [KO:K02146]
297932  Atp6v0d2; V-type proton ATPase subunit d 2 [KO:K02146]
297797  Atp6v1h; V-type proton ATPase subunit H [KO:K02144]
83615  Atp6ap1; V-type proton ATPase subunit S1 precursor [KO:K03662]
170667  Atp6v0c; V-type proton ATPase 16 kDa proteolipid subunit [KO:K02155]
298451  Atp6v0b; V-type proton ATPase 21 kDa proteolipid subunit [KO:K03661]
296370  Ctsa; lysosomal protective protein precursor [KO:K13289] [EC:3.4.16.5]
64529  Ctsb; cathepsin B preproprotein [KO:K01363] [EC:3.4.22.1]
25423  Ctsc; dipeptidyl peptidase 1 precursor [KO:K01275] [EC:3.4.14.1]
171293  Ctsd; cathepsin D precursor [KO:K01379] [EC:3.4.23.5]
25424  Ctse; cathepsin E precursor [KO:K01382] [EC:3.4.23.34]
361704  Ctsf; cathepsin F precursor [KO:K01373] [EC:3.4.22.41]
290257  Ctsg; cathepsin G precursor [KO:K01319] [EC:3.4.21.20]
25425  Ctsh; pro-cathepsin H precursor [KO:K01366] [EC:3.4.22.16]
29174  Ctsj; cathepsin J precursor [KO:K09599] [EC:3.4.22.-]
29175  Ctsk; cathepsin K precursor [KO:K01371] [EC:3.4.22.38]
25697  Ctsl; procathepsin L preproprotein [KO:K01365] [EC:3.4.22.15]
306720  Ctsm; cathepsin M precursor [KO:K09600] [EC:3.4.22.-]
684529  Ctso; cathepsin O [KO:K01374] [EC:3.4.22.42]
50654  Ctss; cathepsin S preproprotein [KO:K01368] [EC:3.4.22.27]
293676  Ctsw; cathepsin W precursor [KO:K08569] [EC:3.4.22.-]
252929  Ctsz; cathepsin Z precursor [KO:K08568] [EC:3.4.18.1]
60575  Napsa; napsin-A precursor [KO:K08565] [EC:3.4.23.-]
63865  Lgmn; legumain precursor [KO:K01369] [EC:3.4.22.34]
83534  Tpp1; tripeptidyl-peptidase 1 precursor [KO:K01279] [EC:3.4.14.9]
363494  Gla; alpha-galactosidase A [KO:K01189] [EC:3.2.1.22]
316033  Glb1; beta-galactosidase precursor [KO:K12309] [EC:3.2.1.23]
367562  Gaa; lysosomal alpha-glucosidase precursor [KO:K12316] [EC:3.2.1.20]
684536  Gba; glucosylceramidase precursor [KO:K01201] [EC:3.2.1.45]
360904  Idua; alpha-L-iduronidase precursor [KO:K01217] [EC:3.2.1.76]
315165  Naga; alpha-N-acetylgalactosaminidase precursor [KO:K01204] [EC:3.2.1.49]
360630  Naglu; alpha-N-acetylglucosaminidase isoform X1 [KO:K01205] [EC:3.2.1.50]
314360  Galc; galactocerebrosidase precursor [KO:K01202] [EC:3.2.1.46]
24434  Gusb; beta-glucuronidase precursor [KO:K01195] [EC:3.2.1.31]
24375  Fuca1; tissue alpha-L-fucosidase precursor [KO:K01206] [EC:3.2.1.51]
292485  Fuca2; plasma alpha-L-fucosidase precursor [KO:K01206] [EC:3.2.1.51]
294673  Hexb; beta-hexosaminidase subunit beta precursor [KO:K12373] [EC:3.2.1.52]
300757  Hexa; beta-hexosaminidase subunit alpha precursor [KO:K12373] [EC:3.2.1.52]
310864  Manba; beta-mannosidase precursor [KO:K01192] [EC:3.2.1.25]
361378  Man2b1; lysosomal alpha-mannosidase precursor [KO:K12311] [EC:3.2.1.24]
24591  Neu1; sialidase-1 precursor [KO:K01186] [EC:3.2.1.18]
367166  Hyal1; hyaluronidase-1 precursor [KO:K01197] [EC:3.2.1.35]
64468  Hyal2; hyaluronidase-2 precursor [KO:K01197] [EC:3.2.1.35]
404783  Hyal4; hyaluronidase-4 [KO:K01197] [EC:3.2.1.35]
300993  Hyal3; hyaluronidase-3 precursor [KO:K01197] [EC:3.2.1.35]
500051  Hyal6; hyaluronoglucosaminidase 6 precursor [KO:K01197] [EC:3.2.1.35]
117037  Spam1; hyaluronidase PH-20 precursor [KO:K01197] [EC:3.2.1.35]
500052  Hyal5; hyaluronidase PH-20 [KO:K01197] [EC:3.2.1.35]
315222  Arsa; arylsulfatase A precursor [KO:K01134] [EC:3.1.6.8]
25227  Arsb; arylsulfatase B precursor [KO:K01135] [EC:3.1.6.12]
303631  Arsg; arylsulfatase G precursor [KO:K12381] [EC:3.1.6.-]
292073  Galns; N-acetylgalactosamine-6-sulfatase precursor [KO:K01132] [EC:3.1.6.4]
299825  Gns; N-acetylglucosamine-6-sulfatase precursor [KO:K01137] [EC:3.1.6.14]
363513  Ids; iduronate 2-sulfatase isoform X1 [KO:K01136] [EC:3.1.6.13]
688293  Sgsh; N-sulphoglucosamine sulphohydrolase isoform X1 [KO:K01565] [EC:3.10.1.1]
25055  Lipa; lysosomal acid lipase/cholesteryl ester hydrolase precursor [KO:K01052] [EC:3.1.1.13]
361401  Pla2g15; phospholipase A2 group XV precursor [KO:K06129] [EC:3.1.1.5]
59296  Dnase2b; deoxyribonuclease-2-beta precursor [KO:K01158] [EC:3.1.22.1]
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]
25732  Acp5; tartrate-resistant acid phosphatase type 5 isoform 2 precursor [KO:K14379] [EC:3.1.3.2]
308909  Smpd1; sphingomyelin phosphodiesterase [KO:K12350] [EC:3.1.4.12]
84431  Asah1; acid ceramidase precursor [KO:K12348] [EC:3.5.1.23]
290923  Aga; N(4)-(Beta-N-acetylglucosaminyl)-L-asparaginase precursor [KO:K01444] [EC:3.5.1.26]
25524  Psap; prosaposin isoform A preproprotein [KO:K12382]
289720  Psapl1; proactivator polypeptide-like 1 precursor [KO:K12382]
282838  Gm2a; ganglioside GM2 activator precursor [KO:K12383]
29411  Ppt1; palmitoyl-protein thioesterase 1 precursor [KO:K01074] [EC:3.1.2.22]
54398  Ppt2; lysosomal thioesterase PPT2 precursor [KO:K01074] [EC:3.1.2.22]
24944  Lamp2; lysosome-associated membrane glycoprotein 2 precursor [KO:K06528]
25328  Lamp1; lysosome-associated membrane glycoprotein 1 precursor [KO:K06528]
303801  Lamp3; lysosome-associated membrane glycoprotein 3 precursor [KO:K06562]
287435  Cd68; macrosialin precursor [KO:K06501]
29186  Cd63; CD63 antigen [KO:K06497]
117106  Scarb2; lysosome membrane protein 2 precursor [KO:K12384]
266732  Npc1; Niemann-Pick C1 protein precursor [KO:K12385]
286898  Npc2; epididymal secretory protein E1 precursor [KO:K13443]
287478  Ctns; cystinosin precursor [KO:K12386]
363103  Slc17a5; sialin [KO:K12301]
316519  Slc11a1; natural resistance-associated macrophage protein 1 [KO:K12347]
25715  Slc11a2; natural resistance-associated macrophage protein 2 [KO:K21398]
315047  Laptm4b; lysosomal-associated transmembrane protein 4B [KO:K12387]
298875  Laptm4a; lysosomal-associated transmembrane protein 4A [KO:K12387]
89783  Laptm5; lysosomal-associated transmembrane protein 5 [KO:K12387]
79248  Abca2; ATP-binding cassette sub-family A member 2 [KO:K05642]
63886  Abcb9; ATP-binding cassette sub-family B member 9 [KO:K05656]
83689  Cd164; sialomucin core protein 24 precursor [KO:K06546]
361063  Entpd4; ectonucleoside triphosphate diphosphohydrolase 4 [KO:K12305] [EC:3.6.1.6]
83576  Sort1; sortilin precursor [KO:K12388]
293485  Cln3; battenin [KO:K12389]
310166  RGD1564125; ceroid-lipofuscinosis neuronal protein 5 homolog [KO:K12390]
306128  Cln5; ceroid-lipofuscinosis, neuronal 5 precursor [KO:K12390]
361939  Mfsd8; major facilitator superfamily domain-containing protein 8 [KO:K12307]
362409  Sumf1; sulfatase-modifying factor 1 precursor [KO:K13444] [EC:1.8.3.7]
362865  Gnptab; N-acetylglucosamine-1-phosphotransferase subunits alpha/beta isoform X2 [KO:K08239] [EC:2.7.8.17]
287134  Gnptg; N-acetylglucosamine-1-phosphotransferase subunit gamma precursor [KO:K10087]
360476  Nagpa; N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [KO:K01125] [EC:3.1.4.45]
25151  Igf2r; cation-independent mannose-6-phosphate receptor precursor [KO:K06564]
312689  M6pr; cation-dependent mannose-6-phosphate receptor precursor [KO:K10089]
83800  Clta; clathrin light chain A [KO:K04644]
116561  Cltb; clathrin light chain B [KO:K04645]
54241  Cltc; clathrin heavy chain 1 [KO:K04646]
171494  Ap1g1; AP-1 complex subunit gamma-1 [KO:K12391]
100362547  Ap1g2; AP-1 complex subunit gamma-like 2 isoform X1 [KO:K12391]
29663  Ap1b1; AP-1 complex subunit beta-1 [KO:K12392]
306332  Ap1m1; AP-1 complex subunit mu-1 [KO:K12393]
367038  Ap1m2; AP-1 complex subunit mu-2 [KO:K12393]
302671  Ap1s2; AP-1 complex subunit sigma-2 [KO:K12394]
360785  Ap1s1; ubiquitin-conjugating enzyme E2 W [KO:K12394]
367304  Ap1s3; AP-1 complex subunit sigma-3 [KO:K12395]
314633  Ap3d1; AP-3 complex subunit delta-1 [KO:K12396]
309969  Ap3b1; AP-3 complex subunit beta-1 [KO:K12397]
308777  Ap3b2; AP-3 complex subunit beta-2 [KO:K12397]
140667  Ap3m2; AP-3 complex subunit mu-2 [KO:K12398]
171126  Ap3m1; AP-3 complex subunit mu-1 [KO:K12398]
683402  Ap3s2; AP-3 complex subunit sigma-2 [KO:K12399]
302290  Ap3s1; AP-3 complex subunit sigma-1 [KO:K12399]
311404  Ap4e1; AP-4 complex subunit epsilon-1 [KO:K12400]
310746  Ap4b1; AP-4 complex subunit beta-1 [KO:K12401]
304344  Ap4m1; AP-4 complex subunit mu-1 [KO:K12402]
366618  Ap4s1; AP-4 complex subunit sigma-1 [KO:K12403]
293455  Gga2; ADP-ribosylation factor-binding protein GGA2 [KO:K12404]
300066  Gga1; ADP-ribosylation factor-binding protein GGA1 [KO:K12404]
360658  Gga3; ADP-ribosylation factor-binding protein GGA3 [KO:K12404]
288371  Mcoln1; mucolipin-1 [KO:K04992]
65161  Litaf; lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog [KO:K19363]
Compound
C00002  ATP
C00008  ADP
C00159  D-Mannose
C00275  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
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
  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
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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