KEGG   PATHWAY: pdam04144
Entry
pdam04144                   Pathway                                
Name
Endocytosis - Pocillopora damicornis (lace coral)
Description
Endocytosis is a mechanism for cells to remove ligands, nutrients, and plasma membrane (PM) proteins, and lipids from the cell surface, bringing them into the cell interior. Transmembrane proteins entering through clathrin-dependent endocytosis (CDE) have sequences in their cytoplasmic domains that bind to the APs (adaptor-related protein complexes) and enable their rapid removal from the PM. In addition to APs and clathrin, there are numerous accessory proteins including dynamin. Depending on the various proteins that enter the endosome membrane, these cargoes are sorted to distinct destinations. Some cargoes, such as nutrient receptors, are recycled back to the PM. Ubiquitylated membrane proteins, such as activated growth-factor receptors, are sorted into intraluminal vesicles and eventually end up in the lysosome lumen via multivesicular endosomes (MVEs). There are distinct mechanisms of clathrin-independent endocytosis (CIE) depending upon the cargo and the cell type.
Class
Cellular Processes; Transport and catabolism
Pathway map
pdam04144  Endocytosis
pdam04144

Other DBs
GO: 0006897
Organism
Pocillopora damicornis (lace coral) [GN:pdam]
Gene
113666854  ADP-ribosylation factor 6 [KO:K07941]
113666855  ADP-ribosylation factor 6 [KO:K07941]
113685063  phosphatidylinositol 4-phosphate 5-kinase type-1 alpha-like isoform X1 [KO:K00889] [EC:2.7.1.68]
113681466  phospholipase D1-like [KO:K01115] [EC:3.1.4.4]
113673825  dynamin-1-like [KO:K01528] [EC:3.6.5.5]
113683792  clathrin light chain B-like isoform X1 [KO:K04644]
113666238  clathrin heavy chain 1-like [KO:K04646]
113675450  AP-2 complex subunit alpha-2-like [KO:K11824]
113678756  AP-2 complex subunit mu [KO:K11826]
113673061  AP-2 complex subunit sigma [KO:K11827]
113673055  TGF-beta receptor type-1-like [KO:K04674] [EC:2.7.11.30]
113683467  uncharacterized protein LOC113683467 [KO:K04679]
113671713  zinc finger FYVE domain-containing protein 9-like [KO:K04679]
113667438  mothers against decapentaplegic homolog 3-like [KO:K23605]
113683455  uncharacterized protein LOC113683455 [KO:K04363] [EC:2.7.10.1]
113670426  fibroblast growth factor receptor 2-like isoform X1 [KO:K05093] [EC:2.7.10.1]
113680240  fibroblast growth factor receptor 3-like [KO:K05093] [EC:2.7.10.1]
113680241  fibroblast growth factor receptor 3-like isoform X1 [KO:K05093] [EC:2.7.10.1]
113680746  vascular endothelial growth factor receptor 2-like [KO:K05093] [EC:2.7.10.1]
113676479  fibroblast growth factor receptor 4-like isoform X1 [KO:K05093] [EC:2.7.10.1]
113675501  fibroblast growth factor receptor 4-like isoform X1 [KO:K05093] [EC:2.7.10.1]
113686100  E3 ubiquitin-protein ligase CBL-B-B-like [KO:K04707] [EC:2.3.2.27]
113667321  endophilin-A2-like [KO:K11247]
113670456  endophilin-B1-like isoform X1 [KO:K21269]
113675865  myc box-dependent-interacting protein 1-like [KO:K12562]
113677049  epsin-2-like [KO:K12471]
113682933  epidermal growth factor receptor substrate 15-like 1 [KO:K12472]
113676503  spartin-like [KO:K19366]
113667324  E3 ubiquitin-protein ligase NEDD4-like [KO:K10591] [EC:2.3.2.26]
113684063  E3 ubiquitin-protein ligase Mdm2-like [KO:K06643] [EC:2.3.2.27]
113665282  uncharacterized protein LOC113665282 [KO:K06643] [EC:2.3.2.27]
113665766  TNF receptor-associated factor 5-like [KO:K03175] [EC:2.3.2.27]
113665768  TNF receptor-associated factor 6-like isoform X1 [KO:K03175] [EC:2.3.2.27]
113679218  TNF receptor-associated factor 6-like [KO:K03175] [EC:2.3.2.27]
113685897  TNF receptor-associated factor 6-like isoform X1 [KO:K03175] [EC:2.3.2.27]
113682775  E3 ubiquitin-protein ligase NRDP1-like [KO:K11981] [EC:2.3.2.27]
113664694  NEDD4-like E3 ubiquitin-protein ligase WWP1 [KO:K05633] [EC:2.3.2.26]
113684903  uncharacterized protein LOC113684903 [KO:K12474]
113686335  uncharacterized protein LOC113686335 [KO:K12474]
113686345  low density lipoprotein receptor adapter protein 1-like [KO:K12474]
113678935  low density lipoprotein receptor adapter protein 1-like [KO:K12474]
113685521  low density lipoprotein receptor adapter protein 1-like [KO:K12474]
113665428  uncharacterized protein LOC113665428 [KO:K12474]
113685230  uncharacterized protein LOC113685230 [KO:K12474]
113686338  uncharacterized protein LOC113686338 [KO:K12474]
113682715  cyclin-dependent kinase 12-like [KO:K12475]
113665499  beta-adrenergic receptor kinase 2-like isoform X1 [KO:K00910] [EC:2.7.11.15]
113682745  LOW QUALITY PROTEIN: G protein-coupled receptor kinase 5-like [KO:K08291] [EC:2.7.11.16]
113668789  arrestin red cell-like [KO:K04439]
113684253  neural Wiskott-Aldrich syndrome protein-like [KO:K23612]
113677468  actin-related protein 2-B [KO:K17260]
113665791  actin-related protein 3 [KO:K18584]
113678583  actin-related protein 2/3 complex subunit 1A-A-like [KO:K05757]
113685715  probable actin-related protein 2/3 complex subunit 2 [KO:K05758]
113673791  actin-related protein 2/3 complex subunit 3-like [KO:K05756]
113682721  actin-related protein 2/3 complex subunit 4 [KO:K05755]
113681676  actin-related protein 2/3 complex subunit 5-A-like [KO:K05754]
113684243  WAS/WASL-interacting protein family member 1-like [KO:K19475]
113671487  heat shock cognate 71 kDa protein-like [KO:K03283]
113667449  heat shock 70 kDa protein 1-like [KO:K03283]
113665715  heat shock protein 70 A1-like [KO:K03283]
113679819  heat shock cognate 71 kDa protein-like [KO:K03283]
113676626  WASH complex subunit 4-like [KO:K18465]
113686812  WASH complex subunit 5-like [KO:K18464]
113676185  WASH complex subunit 2-like [KO:K18462]
113664402  WASH complex subunit 1-like [KO:K18461]
113673463  WASH complex subunit 3-like [KO:K18463]
113671051  F-actin-capping protein subunit alpha-2-like [KO:K10364]
113682508  F-actin-capping protein subunit beta isoforms 1 and 2-like [KO:K10365]
113684367  vacuolar protein sorting-associated protein 29-like [KO:K18467]
113680732  vacuolar protein sorting-associated protein 26B-like [KO:K18466]
113675620  vacuolar protein sorting-associated protein 35-like [KO:K18468]
113671790  sorting nexin-3-like [KO:K17918]
113672535  ubiquitin carboxyl-terminal hydrolase 8-like [KO:K11839] [EC:3.4.19.12]
113684331  STAM-binding protein-like isoform X1 [KO:K11866] [EC:3.4.19.12]
113685608  ras-related protein rab7 isoform X1 [KO:K07897]
113683923  hepatocyte growth factor-regulated tyrosine kinase substrate-like isoform X1 [KO:K12182]
113674352  signal transducing adapter molecule 1-like [KO:K04705]
113677805  tumor susceptibility gene 101 protein-like [KO:K12183]
113668979  tumor susceptibility gene 101 protein-like [KO:K12183]
113673833  multivesicular body subunit 12B-like [KO:K12186]
113669192  vacuolar protein sorting-associated protein 28 homolog [KO:K12184]
113667427  vacuolar protein sorting-associated protein 37C-like [KO:K12185]
113674162  vacuolar protein sorting-associated protein 37A-like isoform X1 [KO:K12185]
113675891  vacuolar-sorting protein SNF8-like [KO:K12188]
113684793  vacuolar protein-sorting-associated protein 36-like [KO:K12190]
113686956  vacuolar protein-sorting-associated protein 25-like [KO:K12189]
113666074  charged multivesicular body protein 6-A-like [KO:K12195]
113679221  charged multivesicular body protein 4b-like [KO:K12194]
113677080  charged multivesicular body protein 4b-like [KO:K12194]
113669692  charged multivesicular body protein 3-like [KO:K12193]
113671554  charged multivesicular body protein 2a-like [KO:K12191]
113678916  charged multivesicular body protein 2b-like [KO:K12192]
113664857  charged multivesicular body protein 7-like [KO:K15053]
113685330  vacuolar protein sorting-associated protein 4B-like isoform X1 [KO:K12196]
113679314  vacuolar protein sorting-associated protein 4B-like [KO:K12196]
113671546  vacuolar protein sorting-associated protein VTA1 homolog [KO:K12199]
113665913  charged multivesicular body protein 1b-like isoform X1 [KO:K12197]
113668879  charged multivesicular body protein 1a-like [KO:K12197]
113668520  charged multivesicular body protein 5-like [KO:K12198]
113678084  IST1 homolog isoform X1 [KO:K19476]
113664735  programmed cell death 6-interacting protein-like [KO:K12200]
113683519  maspardin-like [KO:K19367]
113668641  cation-independent mannose-6-phosphate receptor-like [KO:K06564]
113686695  sorting nexin-2-like [KO:K17917]
113678785  sorting nexin-6-like [KO:K17920]
113682140  GTP-binding protein RHO1-like isoform X1 [KO:K04513]
113672514  ras-like GTP-binding protein RHO [KO:K04513]
113672516  ras-like GTP-binding protein RHO [KO:K04513]
113672533  ras-like GTP-binding protein RHO [KO:K04513]
113684254  riboflavin-binding protein-like [KO:K13649]
113681849  folate receptor beta-like [KO:K13649]
113670846  riboflavin-binding protein-like isoform X1 [KO:K13649]
113680692  riboflavin-binding protein-like [KO:K13649]
113680703  riboflavin-binding protein-like [KO:K13649]
113686194  riboflavin-binding protein-like [KO:K13649]
113681144  caveolin-3-like [KO:K06278]
113664718  caveolin-1-like [KO:K06278]
113684757  caveolin-1-like [KO:K06278]
113677342  EH domain-containing protein 3-like [KO:K12476]
113683130  early endosome antigen 1-like [KO:K12478]
113679723  ras-related protein Rab-5B-like [KO:K07888]
113665183  rab GTPase-binding effector protein 1-like [KO:K12480]
113684825  rabenosyn-5-like [KO:K12481]
113676219  uncharacterized protein LOC113676219 [KO:K12481]
113676336  vacuolar segregation protein pep7-like [KO:K12481]
113666423  RUN and FYVE domain-containing protein 2-like [KO:K12482]
113683502  vacuolar protein sorting-associated protein 45-like [KO:K12479]
113675884  sorting nexin-4-like [KO:K17919]
113666186  ras-related protein Rab-22A-like [KO:K07891]
113672686  ras-related protein Rab-10-like [KO:K07903]
113664233  ras-related protein Rab-10-like [KO:K07903]
113681511  ras-related protein Rab-10-like isoform X1 [KO:K07903]
113681531  ras-related protein Rab-10-like [KO:K07903]
113681532  ras-related protein Rab-10-like [KO:K07903]
113668099  ras-related protein Rab-8A-like [KO:K07901]
113668275  ras-related protein Rab-13-like [KO:K07901]
113668287  ras-like GTP-binding protein RYL1 [KO:K07901]
113684606  ras-related protein SEC4-like [KO:K07901]
113669503  ras-related protein Rab-35-like [KO:K07876]
113668102  ras-related protein Rab-11A-like [KO:K07904]
113681832  ras-related protein Rab2BV-like [KO:K07904]
113680107  protrudin-like [KO:K19368]
113684553  kinesin heavy chain-like isoform X1 [KO:K10396]
113686380  rab11 family-interacting protein 4-like [KO:K12485]
113673019  partitioning defective 3 homolog isoform X1 [KO:K04237]
113685359  partitioning defective 6 homolog gamma-like [KO:K06093]
113682586  protein kinase C iota type-like isoform X1 [KO:K06069] [EC:2.7.11.13]
113666114  cell division control protein 42 homolog [KO:K04393]
113666115  cell division control protein 42 homolog [KO:K04393]
113685112  stromal membrane-associated protein 1-like isoform X1 [KO:K12486]
113669396  arf-GAP with SH3 domain, ANK repeat and PH domain-containing protein 2-like [KO:K12488]
113682445  arf-GAP with coiled-coil, ANK repeat and PH domain-containing protein 3-like [KO:K12489]
113670674  arf-GAP with Rho-GAP domain, ANK repeat and PH domain-containing protein 1-like [KO:K18439]
113672327  arf-GAP with GTPase, ANK repeat and PH domain-containing protein 1-like [KO:K12491]
113681529  ADP-ribosylation factor GTPase-activating protein 1-like [KO:K12492]
113683082  ADP-ribosylation factor GTPase-activating protein 3-like [KO:K12493]
113684329  PH and SEC7 domain-containing protein 1-like isoform X1 [KO:K12494]
113683140  IQ motif and SEC7 domain-containing protein 1-like isoform X1 [KO:K12495]
113666260  cytohesin-1-like [KO:K18441]
113678675  Golgi-specific brefeldin A-resistance guanine nucleotide exchange factor 1-like [KO:K18443]
113670174  ADP-ribosylation factor-like protein 13A [KO:K07937]
113671292  ADP-ribosylation factor-like [KO:K07937]
113671743  ADP-ribosylation factor 3-like [KO:K07938]
113685554  ADP-ribosylation factor 4 [KO:K07939]
Compound
C00035  GDP
C00044  GTP
C04549  1-Phosphatidyl-1D-myo-inositol 3-phosphate
C04637  1-Phosphatidyl-D-myo-inositol 4,5-bisphosphate
C05981  Phosphatidylinositol-3,4,5-trisphosphate
C11556  1-Phosphatidyl-1D-myo-inositol 3,5-bisphosphate
Reference
PMID:19007773
  Authors
Acconcia F, Sigismund S, Polo S
  Title
Ubiquitin in trafficking: the network at work.
  Journal
Exp Cell Res 315:1610-8 (2009)
DOI:10.1016/j.yexcr.2008.10.014
Reference
PMID:18647649
  Authors
Donaldson JG, Porat-Shliom N, Cohen LA
  Title
Clathrin-independent endocytosis: a unique platform for cell signaling and PM remodeling.
  Journal
Cell Signal 21:1-6 (2009)
DOI:10.1016/j.cellsig.2008.06.020
Reference
PMID:15261671
  Authors
Sorkin A
  Title
Cargo recognition during clathrin-mediated endocytosis: a team effort.
  Journal
Curr Opin Cell Biol 16:392-9 (2004)
DOI:10.1016/j.ceb.2004.06.001
Reference
PMID:19325624
  Authors
Raiborg C, Stenmark H
  Title
The ESCRT machinery in endosomal sorting of ubiquitylated membrane proteins.
  Journal
Nature 458:445-52 (2009)
DOI:10.1038/nature07961
Reference
PMID:20110990
  Authors
Scita G, Di Fiore PP
  Title
The endocytic matrix.
  Journal
Nature 463:464-73 (2010)
DOI:10.1038/nature08910
Reference
PMID:15687999
  Authors
Le Roy C, Wrana JL
  Title
Clathrin- and non-clathrin-mediated endocytic regulation of cell signalling.
  Journal
Nat Rev Mol Cell Biol 6:112-26 (2005)
DOI:10.1038/nrm1571
Reference
PMID:19924646
  Authors
Jovic M, Sharma M, Rahajeng J, Caplan S
  Title
The early endosome: a busy sorting station for proteins at the crossroads.
  Journal
Histol Histopathol 25:99-112 (2010)
DOI:10.14670/HH-25.99
Reference
PMID:16203612
  Authors
Pietiainen VM, Marjomaki V, Heino J, Hyypia T
  Title
Viral entry, lipid rafts and caveosomes.
  Journal
Ann Med 37:394-403 (2005)
DOI:10.1080/07853890510011976
Reference
PMID:19696797
  Authors
Grant BD, Donaldson JG
  Title
Pathways and mechanisms of endocytic recycling.
  Journal
Nat Rev Mol Cell Biol 10:597-608 (2009)
DOI:10.1038/nrm2755
Reference
PMID:22193161
  Authors
Cullen PJ, Korswagen HC
  Title
Sorting nexins provide diversity for retromer-dependent trafficking events.
  Journal
Nat Cell Biol 14:29-37 (2012)
DOI:10.1038/ncb2374
Related
pathway
pdam04070  Phosphatidylinositol signaling system
pdam04130  SNARE interactions in vesicular transport
pdam04142  Lysosome
pdam04350  TGF-beta signaling pathway
KO pathway
ko04144   
LinkDB

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