KEGG   PATHWAY: nsy04144
Entry
nsy04144                    Pathway                                
Name
Endocytosis - Nicotiana sylvestris (wood tobacco)
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
nsy04144  Endocytosis
nsy04144

Other DBs
GO: 0006897
Organism
Nicotiana sylvestris (wood tobacco) [GN:nsy]
Gene
104230996  phosphatidylinositol 4-phosphate 5-kinase 6-like isoform X1 [KO:K00889] [EC:2.7.1.68]
104240105  phosphatidylinositol 4-phosphate 5-kinase 9-like [KO:K00889] [EC:2.7.1.68]
104244215  phosphatidylinositol 4-phosphate 5-kinase 9-like [KO:K00889] [EC:2.7.1.68]
104245989  phosphatidylinositol 4-phosphate 5-kinase 7-like [KO:K00889] [EC:2.7.1.68]
104248443  phosphatidylinositol 4-phosphate 5-kinase 6-like [KO:K00889] [EC:2.7.1.68]
104227892  phosphatidylinositol 4-phosphate 5-kinase 2-like [KO:K00889] [EC:2.7.1.68]
104246650  phosphatidylinositol 4-phosphate 5-kinase 1-like [KO:K00889] [EC:2.7.1.68]
104226828  phosphatidylinositol 4-phosphate 5-kinase 6-like [KO:K00889] [EC:2.7.1.68]
104238293  phosphatidylinositol 4-phosphate 5-kinase 6-like [KO:K00889] [EC:2.7.1.68]
104214588  phospholipase D beta 1-like [KO:K01115] [EC:3.1.4.4]
104226610  phospholipase D delta-like [KO:K01115] [EC:3.1.4.4]
104219474  phospholipase D delta-like [KO:K01115] [EC:3.1.4.4]
104212742  phospholipase D p1-like isoform X1 [KO:K01115] [EC:3.1.4.4]
104225888  phospholipase D delta-like [KO:K01115] [EC:3.1.4.4]
104222997  phospholipase D beta 2-like [KO:K01115] [EC:3.1.4.4]
104235034  phospholipase D alpha 1-like isoform X1 [KO:K01115] [EC:3.1.4.4]
104211278  phospholipase D epsilon [KO:K01115] [EC:3.1.4.4]
104245910  phospholipase D alpha 1 [KO:K01115] [EC:3.1.4.4]
104235902  phospholipase D delta-like isoform X1 [KO:K01115] [EC:3.1.4.4]
104243176  phospholipase D delta-like [KO:K01115] [EC:3.1.4.4]
104217796  phospholipase D beta 1-like [KO:K01115] [EC:3.1.4.4]
104237781  phospholipase D p1-like isoform X1 [KO:K01115] [EC:3.1.4.4]
104210789  phospholipase D alpha 1-like [KO:K01115] [EC:3.1.4.4]
104213071  phospholipase D alpha 1-like [KO:K01115] [EC:3.1.4.4]
104239126  dynamin-2A-like [KO:K01528] [EC:3.6.5.5]
104223654  dynamin-2A-like [KO:K01528] [EC:3.6.5.5]
104211205  clathrin heavy chain 1 [KO:K04646]
104232338  clathrin heavy chain 1-like isoform X1 [KO:K04646]
104234988  clathrin heavy chain 2-like [KO:K04646]
104245312  AP-2 complex subunit alpha-1-like isoform X1 [KO:K11824]
104220490  AP-2 complex subunit alpha-1-like [KO:K11824]
104231043  AP-2 complex subunit mu isoform X1 [KO:K11826]
104238414  AP-2 complex subunit mu-like [KO:K11826]
104242474  AP-2 complex subunit sigma-like [KO:K11827]
104229800  AP-2 complex subunit sigma [KO:K11827]
104235698  epsin-2-like isoform X1 [KO:K12471]
104224062  epsin-3 isoform X1 [KO:K12471]
104210547  clathrin interactor EPSIN 3-like [KO:K12471]
104231032  clathrin interactor EPSIN 1-like isoform X1 [KO:K12471]
104233277  clathrin interactor EPSIN 1-like [KO:K12471]
104233239  clathrin interactor EPSIN 2-like [KO:K12471]
104214692  epidermal growth factor receptor substrate 15-like 1 [KO:K12472]
104247590  epidermal growth factor receptor substrate 15-like 1 [KO:K12472]
104214921  actin cytoskeleton-regulatory complex protein PAN1-like isoform X1 [KO:K12472]
104210178  uncharacterized protein LOC104210178 [KO:K19366]
104221112  uncharacterized protein LOC104221112 [KO:K19366]
104212220  uncharacterized protein LOC104212220 [KO:K19366]
104236899  extensin-2-like [KO:K23612]
104235328  extensin-1-like [KO:K23612]
104233483  actin-related protein 2 [KO:K17260]
104224839  actin-related protein 3 isoform X1 [KO:K18584]
104229880  actin-related protein 3-like isoform X1 [KO:K18584]
104233447  actin-related protein 2/3 complex subunit 1A-like isoform X1 [KO:K05757]
104212023  actin-related protein 2/3 complex subunit 2A [KO:K05758]
104237490  actin-related protein 2/3 complex subunit 2B isoform X1 [KO:K05758]
104239041  actin-related protein 2/3 complex subunit 3 [KO:K05756]
104222434  actin-related protein 2/3 complex subunit 4 [KO:K05755]
104216004  actin-related protein 2/3 complex subunit 5A [KO:K05754]
104227119  heat shock cognate 70 kDa protein 2-like [KO:K03283]
104233462  heat shock cognate 70 kDa protein 2-like [KO:K03283]
104241066  stromal 70 kDa heat shock-related protein, chloroplastic-like [KO:K03283]
104222357  heat shock 70 kDa protein-like [KO:K03283]
104228095  heat shock cognate 70 kDa protein 2-like [KO:K03283]
104225008  stromal 70 kDa heat shock-related protein, chloroplastic [KO:K03283]
104232482  heat shock cognate 70 kDa protein [KO:K03283]
104234260  heat shock cognate 70 kDa protein 2 [KO:K03283]
104234285  heat shock cognate 70 kDa protein 2-like isoform X1 [KO:K03283]
104237078  heat shock 70 kDa protein [KO:K03283]
104231210  F-actin-capping protein subunit alpha isoform X1 [KO:K10364]
104225131  probable F-actin-capping protein subunit beta [KO:K10365]
104216546  vacuolar protein sorting-associated protein 29-like [KO:K18467]
104249012  vacuolar protein sorting-associated protein 29 [KO:K18467]
104234232  vacuolar protein sorting-associated protein 26A [KO:K18466]
104243973  vacuolar protein sorting-associated protein 35A-like [KO:K18468]
104240747  vacuolar protein sorting-associated protein 35A-like [KO:K18468]
104216325  vacuolar protein sorting-associated protein 35B-like [KO:K18468]
104236864  AMSH-like ubiquitin thioesterase 2 isoform X1 [KO:K11866] [EC:3.4.19.12]
104226769  AMSH-like ubiquitin thioesterase 1 isoform X1 [KO:K11866] [EC:3.4.19.12]
104212656  AMSH-like ubiquitin thioesterase 3 [KO:K11866] [EC:3.4.19.12]
104246417  ras-related protein Rab7-like [KO:K07897]
104215508  ras-related protein Rab7-like [KO:K07897]
104215903  ras-related protein Rab7 isoform X1 [KO:K07897]
104248818  ras-related protein Rab7-like isoform X1 [KO:K07897]
104249964  ras-related protein Rab7 [KO:K07897]
104213240  ras-related protein RABG3f [KO:K07897]
104236812  protein ELC-like [KO:K12183]
104246395  protein ELC-like [KO:K12183]
104217367  protein ELC-like [KO:K12183]
104237094  vacuolar protein sorting-associated protein 28 homolog 2 [KO:K12184]
104240491  vacuolar protein sorting-associated protein 28 homolog 2-like [KO:K12184]
104227351  vacuolar protein-sorting-associated protein 37 homolog 1-like [KO:K12185]
104210224  vacuolar protein-sorting-associated protein 37 homolog 1 [KO:K12185]
104226051  vacuolar protein sorting-associated protein 22 homolog 1 [KO:K12188]
104236073  vacuolar protein sorting-associated protein 36 [KO:K12190]
104243679  vacuolar protein sorting-associated protein 25 [KO:K12189]
104243767  vacuolar protein sorting-associated protein 20 homolog 2-like [KO:K12195]
104246591  vacuolar protein sorting-associated protein 20 homolog 2-like [KO:K12195]
104246185  vacuolar protein sorting-associated protein 32 homolog 2-like [KO:K12194]
104216928  vacuolar protein sorting-associated protein 32 homolog 2 [KO:K12194]
104218612  vacuolar protein sorting-associated protein 32 homolog 2 [KO:K12194]
104233276  vacuolar protein sorting-associated protein 32 homolog 2-like [KO:K12194]
104227071  vacuolar protein sorting-associated protein 24 homolog 1 [KO:K12193]
104225649  vacuolar protein sorting-associated protein 24 homolog 1-like [KO:K12193]
104242111  vacuolar protein sorting-associated protein 24 homolog 1 [KO:K12193]
104249556  vacuolar protein sorting-associated protein 2 homolog 1 [KO:K12191]
104243498  vacuolar protein sorting-associated protein 2 homolog 2 [KO:K12191]
104210691  vacuolar protein sorting-associated protein 2 homolog 3 isoform X1 [KO:K12192]
104211912  charged multivesicular body protein 7 isoform X1 [KO:K15053]
104249804  vacuolar protein sorting-associated protein 4-like isoform X1 [KO:K12196]
104211452  vacuolar protein sorting-associated protein 4B-like [KO:K12196]
104210802  vacuolar protein sorting-associated protein 4B-like [KO:K12196]
104221407  vacuolar protein sorting-associated protein VTA1 homolog [KO:K12199]
104213076  vacuolar protein sorting-associated protein VTA1 homolog [KO:K12199]
104238523  charged multivesicular body protein 1-like [KO:K12197]
104227518  charged multivesicular body protein 1-like [KO:K12197]
104245054  charged multivesicular body protein 5-like [KO:K12198]
104216347  charged multivesicular body protein 5-like [KO:K12198]
104236280  ALG-2 interacting protein X-like [KO:K12200]
104210763  ALG-2 interacting protein X-like [KO:K12200]
104237224  maspardin [KO:K19367]
104215982  sorting nexin 1 [KO:K17917]
104215016  ras-related protein RHN1-like isoform X1 [KO:K07888]
104235043  ras-related protein RABF1 [KO:K07889]
104230339  ras-related protein RHN1 [KO:K07889]
104246463  ras-related protein Rab5 [KO:K07889]
104228505  EH domain-containing protein 1-like isoform X1 [KO:K12483]
104221409  EH domain-containing protein 1-like isoform X1 [KO:K12483]
104226361  EH domain-containing protein 1 isoform X1 [KO:K12483]
104220536  EH domain-containing protein 1-like [KO:K12483]
104215794  vacuolar protein sorting-associated protein 45 homolog [KO:K12479]
104214541  ras-related protein RABE1c-like [KO:K07901]
104244627  ras-related protein RABE1c-like [KO:K07901]
104244212  ras-related protein RABE1a-like [KO:K07901]
104213704  ras-related protein RABE1c-like [KO:K07901]
104239915  ras-related protein RABE1a [KO:K07901]
104239925  ras-related protein RABA1f-like [KO:K07904]
104242466  ras-related protein Rab2BV-like [KO:K07904]
104244700  ras-related protein Rab11D-like [KO:K07904]
104226352  ras-related protein RABA5a-like [KO:K07904]
104224480  ras-related protein RABA2b-like [KO:K07904]
104215107  ras-related protein RABA4d-like [KO:K07904]
104247663  ras-related protein YPT3 [KO:K07904]
104244052  ras-related protein Rab2BV-like [KO:K07904]
104247391  ras-related protein RABA1d [KO:K07904]
104249965  ras-related protein RABA4d-like [KO:K07904]
104243801  ras-related protein RABA3 [KO:K07904]
104215946  ras-related protein RABA2a-like [KO:K07904]
104220508  ras-related protein RABA2a [KO:K07904]
104225420  ras-related protein RABA5a-like [KO:K07904]
104248306  ras-related protein Rab11D [KO:K07904]
104238862  ras-related protein RABA5c-like [KO:K07904]
104245618  ras-related protein RGP1-like [KO:K07904]
104242409  ras-related protein Rab11A [KO:K07904]
104218217  ras-related protein RABA1f-like [KO:K07904]
104248387  ADP-ribosylation factor GTPase-activating protein AGD12-like [KO:K12486]
104225823  probable ADP-ribosylation factor GTPase-activating protein AGD15 [KO:K12486]
104214330  probable ADP-ribosylation factor GTPase-activating protein AGD5 [KO:K12486]
104229328  probable ADP-ribosylation factor GTPase-activating protein AGD11 [KO:K12486]
104247160  probable ADP-ribosylation factor GTPase-activating protein AGD5 isoform X1 [KO:K12486]
104211011  probable ADP-ribosylation factor GTPase-activating protein AGD5 [KO:K12486]
104225972  ADP-ribosylation factor GTPase-activating protein AGD4-like isoform X1 [KO:K12489]
104247719  LOW QUALITY PROTEIN: ADP-ribosylation factor GTPase-activating protein AGD3-like [KO:K12489]
104240407  ADP-ribosylation factor GTPase-activating protein AGD3 isoform X1 [KO:K12489]
104249419  ADP-ribosylation factor GTPase-activating protein AGD3-like isoform X1 [KO:K12489]
104235857  probable ADP-ribosylation factor GTPase-activating protein AGD6 [KO:K12492]
104249457  probable ADP-ribosylation factor GTPase-activating protein AGD6 [KO:K12492]
104248587  probable ADP-ribosylation factor GTPase-activating protein AGD8 [KO:K12493]
104238584  probable ADP-ribosylation factor GTPase-activating protein AGD8 [KO:K12493]
104241735  brefeldin A-inhibited guanine nucleotide-exchange protein 1 [KO:K18442]
104245214  brefeldin A-inhibited guanine nucleotide-exchange protein 2-like [KO:K18442]
104236878  ARF guanine-nucleotide exchange factor GNOM-like [KO:K18443]
104237751  ARF guanine-nucleotide exchange factor GNOM-like isoform X1 [KO:K18443]
104236920  ARF guanine-nucleotide exchange factor GNL2 [KO:K18443]
104236979  ARF guanine-nucleotide exchange factor GNOM-like [KO:K18443]
104213471  ARF guanine-nucleotide exchange factor GNOM-like [KO:K18443]
104246845  ADP-ribosylation factor 1-like isoform X1 [KO:K07937]
104211668  ADP-ribosylation factor 1-like [KO:K07937]
104214346  ADP-ribosylation factor 2-like [KO:K07937]
104211779  ADP-ribosylation factor 2 [KO:K07937]
104226465  ADP-ribosylation factor-like [KO:K07937]
104210332  ADP-ribosylation factor [KO:K07937]
104225036  ADP-ribosylation factor 1-like [KO:K07937]
104210818  ADP-ribosylation factor 2 [KO:K07937]
104241190  ADP-ribosylation factor 1-like [KO:K07937]
104217340  ADP-ribosylation factor-like [KO:K07937]
104216054  ADP-ribosylation factor 1-like 2 [KO:K07937]
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
nsy04070  Phosphatidylinositol signaling system
nsy04130  SNARE interactions in vesicular transport
KO pathway
ko04144   
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