KEGG   PATHWAY: cel04142
Entry
cel04142                    Pathway                                
Name
Lysosome - Caenorhabditis elegans (nematode)
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
cel04142  Lysosome
cel04142

Other DBs
GO: 0005764
Organism
Caenorhabditis elegans (nematode) [GN:cel]
Gene
CELE_B0252.2  asm-1; Sphingomyelin phosphodiesterase 1 [KO:K12350] [EC:3.1.4.12]
CELE_C01G8.2  cln-3.2; Battenin [KO:K12389]
CELE_C03B1.12  lmp-1; LAMP family protein lmp-1 [KO:K06528]
CELE_C05C10.1  pho-10; Putative acid phosphatase 10 [KO:K14410] [EC:3.1.3.2]
CELE_C05C10.4  pho-11; Putative acid phosphatase 11 [KO:K14410] [EC:3.1.3.2]
CELE_C07B5.5  nuc-1; Deoxyribonuclease-2 [KO:K01158] [EC:3.1.22.1]
CELE_C25B8.3  cpr-6; Cathepsin B-like cysteine proteinase 6 [KO:K01363] [EC:3.4.22.1]
CELE_C26H9A.1  vha-7; V-type proton ATPase 116 kDa subunit a 4 [KO:K02154]
CELE_C27A2.12  C27A2.12; Histidine acid phosphatase [KO:K14410] [EC:3.1.3.2]
CELE_C27A2.4  pho-12; Lysosomal acid phosphatase [KO:K14410] [EC:3.1.3.2]
CELE_C28C12.7  spp-10; Saposin B-type domain-containing protein [KO:K12382]
CELE_C29E4.10  C29E4.10; Putative galactocerebrosidase [KO:K01202] [EC:3.2.1.46]
CELE_C30F8.2  vha-16; V-type proton ATPase subunit [KO:K02146]
CELE_C33C12.3  gba-1; Putative glucosylceramidase 1 [KO:K01201] [EC:3.2.1.45]
CELE_C33C12.8  gba-2; Putative glucosylceramidase 2 [KO:K01201] [EC:3.2.1.45]
CELE_C33G3.4  C33G3.4; putative beta-mannosidase [KO:K01192] [EC:3.2.1.25]
CELE_C41C4.7  ctns-1; Cystinosin homolog [KO:K12386]
CELE_C52E4.1  cpr-1; Gut-specific cysteine proteinase [KO:K01363] [EC:3.4.22.1]
CELE_EGAP2.3  pho-1; Intestinal acid phosphatase [KO:K14410] [EC:3.1.3.2]
CELE_F02E8.6  ncr-1; NPC intracellular cholesterol transporter 1 homolog 1 [KO:K12385]
CELE_F02E9.7  F02E9.7; Tartrate-resistant acid phosphatase type 5 [KO:K14379] [EC:3.1.3.2]
CELE_F07B10.1  cln-3.1; Battenin [KO:K12389]
CELE_F07H5.9  pho-13; intestinal acid PHOsphatase [KO:K14410] [EC:3.1.3.2]
CELE_F09G8.2  crn-7; Cell-death-related nuclease 7 [KO:K01158] [EC:3.1.22.1]
CELE_F11E6.1  gba-3; Putative glucosylceramidase 3 [KO:K01201] [EC:3.2.1.45]
CELE_F13D12.6  ctsa-1.2; Serine carboxypeptidase ctsa-1.2 [KO:K13289] [EC:3.4.16.5]
CELE_F14D7.6  F14D7.6; MFS domain-containing protein [KO:K12307]
CELE_F26C11.1  F26C11.1; Putative acid phosphatase F26C11.1 [KO:K14410] [EC:3.1.3.2]
CELE_F27E5.1  asah-2; putative acid ceramidase [KO:K12348] [EC:3.5.1.23]
CELE_F29G9.3  aps-1; AP complex subunit sigma [KO:K12394]
CELE_F32B5.8  cpz-1; Cathepsin Z-1 [KO:K08568] [EC:3.4.18.1]
CELE_F32H5.1  F32H5.1; Peptidase C1A papain C-terminal domain-containing protein [KO:K01363] [EC:3.4.22.1]
CELE_F35H10.4  vha-5; V-type proton ATPase 116 kDa subunit a 2 [KO:K02154]
CELE_F36D3.9  cpr-2; Peptidase C1A papain C-terminal domain-containing protein [KO:K01363] [EC:3.4.22.1]
CELE_F36G3.3  F36G3.3; LITAF domain-containing protein [KO:K19363]
CELE_F41C3.5  ctsa-1.1; Serine carboxypeptidase ctsa-1.1 [KO:K13289] [EC:3.4.16.5]
CELE_F41E6.6  tag-196; Cathepsin F [KO:K01373] [EC:3.4.22.41]
CELE_F43E2.4  haf-2; ABC-type antigen peptide transporter [KO:K05656]
CELE_F44C4.3  cpr-4; Cathepsin B-like cysteine proteinase 4 [KO:K01363] [EC:3.4.22.1]
CELE_F44C4.5  ppt-1; Palmitoyl-protein thioesterase 1 [KO:K01074] [EC:3.1.2.22]
CELE_F52E1.10  vha-18; putative V-type proton ATPase subunit H 1 [KO:K02144]
CELE_F52E1.13  lmd-3; Oxidation resistance protein 1 [KO:K25442]
CELE_F53H8.1  apm-3; MHD domain-containing protein [KO:K12398]
CELE_F54E4.1  rbc-1; RAVE complex protein Rav1 C-terminal domain-containing protein [KO:K24155]
CELE_F54F3.3  lipl-1; Lipase lipl-1 [KO:K01052] [EC:3.1.1.13]
CELE_F55A12.7  apm-1; MHD domain-containing protein [KO:K12393]
CELE_F55D10.1  aman-1; Alpha-mannosidase [KO:K12311] [EC:3.2.1.24]
CELE_F57F5.1  cpr-9; Peptidase C1A papain C-terminal domain-containing protein [KO:K01363] [EC:3.4.22.1]
CELE_H22K11.1  asp-3; Aspartic protease 3 [KO:K01379] [EC:3.4.23.5]
CELE_K04H4.6  crn-6; Cell death-related nuclease 6 [KO:K01158] [EC:3.1.22.1]
CELE_K08E7.1  eak-7; MTOR-associated protein MEAK7 [KO:K27947]
CELE_K09E4.4  K09E4.4; Alpha-N-acetylglucosaminidase [KO:K01205] [EC:3.2.1.50]
CELE_K11D2.2  asah-1; Acid ceramidase subunit beta [KO:K12348] [EC:3.5.1.23]
CELE_K11D2.3  unc-101; AP-1 complex subunit mu-1-I [KO:K12393]
CELE_K11G12.3  smf-2; NRAMP-like transporter smf-2 [KO:K21398]
CELE_K11G12.4  smf-1; NRAMP-like transporter smf-1 [KO:K21398]
CELE_M04G12.2  cpz-2; cathepsin X [KO:K08568] [EC:3.4.18.1]
CELE_M05B5.4  plag-15; PhosphoLipase A2 Group [KO:K06129] [EC:3.1.1.5]
CELE_R04B3.2  R04B3.2; Glycosylasparaginase beta chain [KO:K01444] [EC:3.5.1.26]
CELE_R07B7.11  gana-1; Alpha-galactosidase [KO:K01204] [EC:3.2.1.49]
CELE_R07E4.4  mig-23; Nucleoside-diphosphatase mig-23 [KO:K12305] [EC:3.6.1.6]
CELE_R10E11.2  vha-2; V-type proton ATPase 16 kDa proteolipid subunit c 3 [KO:K02155]
CELE_R10E11.8  vha-1; V-type proton ATPase 16 kDa proteolipid subunit c 1 [KO:K02155]
CELE_R11A5.1  apb-3; AP-3 complex subunit beta [KO:K12397]
CELE_R12H7.2  asp-4; Aspartic protease 4 [KO:K01379] [EC:3.4.23.5]
CELE_R148.6  heh-1; Putative protein heh-1 [KO:K13443]
CELE_T01H3.1  vha-4; V-type proton ATPase 21 kDa proteolipid subunit c'' [KO:K03661]
CELE_T03E6.7  cpl-1; Cathepsin L-like [KO:K01365] [EC:3.4.22.15]
CELE_T09B9.2  slc-17.9; Major facilitator superfamily (MFS) profile domain-containing protein [KO:K12301]
CELE_T10H4.12  cpr-3; Cathepsin B-like cysteine proteinase 3 [KO:K01363] [EC:3.4.22.1]
CELE_T13B5.3  pho-14; Histidine acid phosphatase [KO:K14410] [EC:3.1.3.2]
CELE_T14F9.1  vha-15; putative V-type proton ATPase subunit H 2 [KO:K02144]
CELE_T14F9.3  hex-1; Beta-hexosaminidase A [KO:K12373] [EC:3.2.1.52]
CELE_T16D1.2  pho-4; intestinal acid PHOsphatase [KO:K14410] [EC:3.1.3.2]
CELE_T19B10.3  bgal-1; Beta-galactosidase [KO:K12309] [EC:3.2.1.23]
CELE_T20G5.1  chc-1; putative clathrin heavy chain 1 [KO:K04646]
CELE_T22C8.2  chhy-1; Chondroitin hydrolase [KO:K01197] [EC:3.2.1.35]
CELE_T23D8.2  tsp-7; Tetraspanin [KO:K06497]
CELE_T28H10.3  lgmn-1; legumain [KO:K01369] [EC:3.4.22.34]
CELE_VW02B12L.1  vha-6; V-type proton ATPase 116 kDa subunit a 3 [KO:K02154]
CELE_W03G1.7  asm-3; Putative sphingomyelin phosphodiesterase asm-3 [KO:K12350] [EC:3.1.4.12]
CELE_W03G11.3  W03G11.3; Putative alpha-L-fucosidase [KO:K01206] [EC:3.2.1.51]
CELE_W04C9.1  haf-4; ABC-type antigen peptide transporter [KO:K05656]
CELE_W04G3.4  apt-9; ADP-ribosylation factor-binding protein GGA1 [KO:K12404]
CELE_W07B8.1  cpr-8; Peptidase C1A papain C-terminal domain-containing protein [KO:K01363] [EC:3.4.22.1]
CELE_W07B8.4  W07B8.4; Peptidase C1A papain C-terminal domain-containing protein [KO:K01363] [EC:3.4.22.1]
CELE_W07B8.5  cpr-5; Cathepsin B-like cysteine proteinase 5 [KO:K01363] [EC:3.4.22.1]
CELE_W09G10.4  apd-3; AP-3 complex subunit delta [KO:K12396]
CELE_Y105E8A.9  apg-1; AP-1 complex subunit gamma [KO:K12391]
CELE_Y105E8B.9  Y105E8B.9; Beta-glucuronidase [KO:K01195] [EC:3.2.1.31]
CELE_Y16B4A.2  Y16B4A.2; Carboxypeptidase [KO:K13289] [EC:3.4.16.5]
CELE_Y38F2AL.4  vha-3; V-type proton ATPase 16 kDa proteolipid subunit 2/3 [KO:K02155]
CELE_Y40D12A.2  ctsa-4.2; Carboxypeptidase [KO:K13289] [EC:3.4.16.5]
CELE_Y48G8AL.14  aps-3; AP complex mu/sigma subunit domain-containing protein [KO:K12399]
CELE_Y49E10.20  scav-3; Sensory neuron membrane protein 2 [KO:K12384]
CELE_Y4C6B.6  gba-4; Putative glucosylceramidase 4 [KO:K01201] [EC:3.2.1.45]
CELE_Y50E8A.16  haf-7; HAlF transporter (PGP related) [KO:K05656]
CELE_Y53G8AR.7  mfsd-8.3; Major facilitator superfamily (MFS) profile domain-containing protein [KO:K12307]
CELE_Y54F10AM.10  rbc-2; WD_REPEATS_REGION domain-containing protein [KO:K24738]
CELE_Y55H10A.1  vha-19; V-type proton ATPase subunit S1 [KO:K03662]
CELE_Y69A2AR.4  smf-3; NRAMP-like transporter smf-3 [KO:K21398]
CELE_Y76A2B.6  scav-2; SCAVenger receptor (CD36 family) related [KO:K12384]
CELE_Y87G2A.19  Y87G2A.19; LITAF domain-containing protein [KO:K19363]
CELE_ZC190.1  cln-3.3; Battenin [KO:K12389]
CELE_ZK384.3  asp-18; Peptidase A1 domain-containing protein [KO:K01379] [EC:3.4.23.5]
CELE_ZK455.4  asm-2; Sphingomyelin phosphodiesterase 2 [KO:K12350] [EC:3.1.4.12]
CELE_ZK484.2  haf-9; ABC-type antigen peptide transporter [KO:K05656]
CELE_ZK6.7  lipl-5; Lipase lipl-5 [KO:K01052] [EC:3.1.1.13]
CELE_ZK637.8  unc-32; V-type proton ATPase 116 kDa subunit a 1 [KO:K02154]
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
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 22:339-352 (2022)
DOI:10.1038/s41577-021-00626-8
Related
pathway
cel00511  Other glycan degradation
cel00531  Glycosaminoglycan degradation
cel04130  SNARE interactions in vesicular transport
cel04140  Autophagy - animal
cel04144  Endocytosis
KO pathway
ko04142   

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