KEGG   PATHWAY: obr04144
Entry
obr04144                    Pathway                                
Name
Endocytosis - Oryza brachyantha (malo sina)
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
obr04144  Endocytosis
obr04144

Other DBs
GO: 0006897
Organism
Oryza brachyantha (malo sina) [GN:obr]
Gene
102703841  phosphatidylinositol 4-phosphate 5-kinase 9 [KO:K00889] [EC:2.7.1.68]
102703570  phosphatidylinositol 4-phosphate 5-kinase 6-like [KO:K00889] [EC:2.7.1.68]
102719936  phosphatidylinositol 4-phosphate 5-kinase 1-like [KO:K00889] [EC:2.7.1.68]
102702176  phosphatidylinositol 4-phosphate 5-kinase 1 isoform X1 [KO:K00889] [EC:2.7.1.68]
102706640  phosphatidylinositol 4-phosphate 5-kinase 1 [KO:K00889] [EC:2.7.1.68]
102717174  phosphatidylinositol 4-phosphate 5-kinase 6 [KO:K00889] [EC:2.7.1.68]
102702793  phosphatidylinositol 4-phosphate 5-kinase 6 isoform X2 [KO:K00889] [EC:2.7.1.68]
102720843  phosphatidylinositol 4-phosphate 5-kinase 6-like isoform X2 [KO:K00889] [EC:2.7.1.68]
102721888  phospholipase D zeta 1-like [KO:K01115] [EC:3.1.4.4]
102710339  phospholipase D alpha 1 [KO:K01115] [EC:3.1.4.4]
102708773  phospholipase D delta-like [KO:K01115] [EC:3.1.4.4]
102707309  phospholipase D alpha 1-like [KO:K01115] [EC:3.1.4.4]
102711051  phospholipase D alpha 1-like [KO:K01115] [EC:3.1.4.4]
102706828  phospholipase D delta-like [KO:K01115] [EC:3.1.4.4]
102722297  phospholipase D zeta 1-like isoform X2 [KO:K01115] [EC:3.1.4.4]
102712182  phospholipase D alpha 2-like [KO:K01115] [EC:3.1.4.4]
102712457  phospholipase D alpha 2-like [KO:K01115] [EC:3.1.4.4]
102703136  phospholipase D delta-like [KO:K01115] [EC:3.1.4.4]
102713915  phospholipase D alpha 2-like isoform X2 [KO:K01115] [EC:3.1.4.4]
102715000  LOW QUALITY PROTEIN: phospholipase D gamma 1-like [KO:K01115] [EC:3.1.4.4]
102714193  phospholipase D alpha 2 [KO:K01115] [EC:3.1.4.4]
102710431  phospholipase D alpha 1-like [KO:K01115] [EC:3.1.4.4]
102709488  phospholipase D alpha 1-like [KO:K01115] [EC:3.1.4.4]
102708364  phospholipase D delta [KO:K01115] [EC:3.1.4.4]
102707805  phospholipase D gamma 1-like [KO:K01115] [EC:3.1.4.4]
102699573  dynamin-2A-like [KO:K01528] [EC:3.6.5.5]
102708807  dynamin-2A-like [KO:K01528] [EC:3.6.5.5]
102709195  dynamin-2A-like isoform X1 [KO:K01528] [EC:3.6.5.5]
102707624  clathrin heavy chain 1-like [KO:K04646]
102716461  clathrin heavy chain 1 [KO:K04646]
102708219  AP-2 complex subunit alpha-2-like [KO:K11824]
102720402  AP-2 complex subunit mu [KO:K11826]
102706338  AP-2 complex subunit sigma [KO:K11827]
102706607  clathrin interactor EPSIN 1-like isoform X1 [KO:K12471]
102708411  clathrin interactor EPSIN 2 [KO:K12471]
102707669  clathrin interactor EPSIN 1-like [KO:K12471]
102714488  epsin-3-like [KO:K12471]
102699666  protein EARLY-RESPONSIVE TO DEHYDRATION 7, chloroplastic [KO:K19366]
102721935  protein EARLY-RESPONSIVE TO DEHYDRATION 7, chloroplastic-like [KO:K19366]
102713760  actin-related protein 2 [KO:K17260]
102717494  actin-related protein 3 isoform X2 [KO:K18584]
102702120  actin-related protein 3-like [KO:K18584]
102719460  actin-related protein 2/3 complex subunit 1B-like [KO:K05757]
102711476  actin-related protein 2/3 complex subunit 2A [KO:K05758]
102704235  actin-related protein 2/3 complex subunit 2B-like isoform X1 [KO:K05758]
102705784  actin-related protein 2/3 complex subunit 3 [KO:K05756]
102711684  actin-related protein 2/3 complex subunit 4 [KO:K05755]
102704560  actin-related protein 2/3 complex subunit 5A [KO:K05754]
102711350  stromal 70 kDa heat shock-related protein, chloroplastic [KO:K03283]
102714815  heat shock 70 kDa protein 4-like [KO:K03283]
102713993  heat shock cognate 70 kDa protein-like [KO:K03283]
102715650  heat shock cognate 70 kDa protein-like [KO:K03283]
107303377  heat shock cognate 70 kDa protein-like [KO:K03283]
102702055  heat shock 70 kDa protein 4 [KO:K03283]
102702507  heat shock cognate 70 kDa protein 2 [KO:K03283]
102701680  heat shock cognate 70 kDa protein 2 [KO:K03283]
102713675  heat shock cognate 70 kDa protein-like [KO:K03283]
102719825  stromal 70 kDa heat shock-related protein, chloroplastic-like [KO:K03283]
102703529  heat shock cognate 70 kDa protein-like [KO:K03283]
107305215  heat shock cognate 70 kDa protein-like [KO:K03283]
102710415  WASH complex subunit 4-like isoform X1 [KO:K18465]
102722011  WASH complex subunit 5-like [KO:K18464]
102720870  WASH complex subunit 3-like [KO:K18463]
102719408  F-actin-capping protein subunit alpha [KO:K10364]
102721152  probable F-actin-capping protein subunit beta [KO:K10365]
102716096  vacuolar protein sorting-associated protein 29 [KO:K18467]
102701042  vacuolar protein sorting-associated protein 26A-like isoform X1 [KO:K18466]
102705954  vacuolar protein sorting-associated protein 26A-like [KO:K18466]
102723042  vacuolar protein sorting-associated protein 35B [KO:K18468]
102717105  AMSH-like ubiquitin thioesterase 2 [KO:K11866] [EC:3.4.19.12]
102705380  AMSH-like ubiquitin thioesterase 3 [KO:K11866] [EC:3.4.19.12]
102712024  AMSH-like ubiquitin thioesterase 3 isoform X1 [KO:K11866] [EC:3.4.19.12]
102712302  AMSH-like ubiquitin thioesterase 3 [KO:K11866] [EC:3.4.19.12]
102711749  ras-related protein Rab7 [KO:K07897]
102699437  ras-related protein Rab7 [KO:K07897]
102699784  ras-related protein Rab7-like [KO:K07897]
102706475  ras-related protein Rab7 isoform X1 [KO:K07897]
102714892  protein ELC-like [KO:K12183]
102721213  vacuolar protein sorting-associated protein 28 homolog 1 [KO:K12184]
102715187  vacuolar protein-sorting-associated protein 37 homolog 1-like isoform X1 [KO:K12185]
102714802  vacuolar protein-sorting-associated protein 37 homolog 1-like isoform X2 [KO:K12185]
102717369  vacuolar protein sorting-associated protein 22 homolog 1 [KO:K12188]
102722721  vacuolar protein sorting-associated protein 36 [KO:K12190]
102715705  vacuolar protein sorting-associated protein 25 [KO:K12189]
102717215  vacuolar protein sorting-associated protein 20 homolog 2-like [KO:K12195]
102717348  vacuolar protein sorting-associated protein 32 homolog 2 [KO:K12194]
102717182  vacuolar protein sorting-associated protein 32 homolog 2-like [KO:K12194]
102704282  vacuolar protein sorting-associated protein 32 homolog 2-like isoform X2 [KO:K12194]
102710355  vacuolar protein sorting-associated protein 32 homolog 2-like [KO:K12194]
102704956  vacuolar protein sorting-associated protein 24 homolog 1-like [KO:K12193]
102717359  vacuolar protein sorting-associated protein 24 homolog 1-like [KO:K12193]
102722287  vacuolar protein sorting-associated protein 2 homolog 2 [KO:K12191]
102721460  vacuolar protein sorting-associated protein 2 homolog 1-like [KO:K12191]
102701948  vacuolar protein sorting-associated protein 2 homolog 1-like [KO:K12191]
102716072  vacuolar protein sorting-associated protein 2 homolog 3 isoform X1 [KO:K12192]
102717562  uncharacterized protein LOC102717562 [KO:K15053]
102710338  protein SUPPRESSOR OF K(+) TRANSPORT GROWTH DEFECT 1 [KO:K12196]
102700247  protein HOMOLOG OF MAMMALIAN LYST-INTERACTING PROTEIN 5 [KO:K12199]
102709655  ESCRT-related protein CHMP1 [KO:K12197]
102704183  vacuolar protein sorting-associated protein 60.1-like isoform X1 [KO:K12198]
102707490  vacuolar protein sorting-associated protein 60.2-like [KO:K12198]
102703622  vacuolar-sorting protein BRO1 [KO:K12200]
102704586  vacuolar-sorting protein BRO1-like [KO:K12200]
102703248  maspardin [KO:K19367]
102721510  sorting nexin 1 [KO:K17917]
102716142  ras-related protein Rab5-like [KO:K07889]
102709418  ras-related protein Rab5A [KO:K07889]
102716285  EH domain-containing protein 1-like [KO:K12483]
102707863  EH domain-containing protein 1-like isoform X1 [KO:K12483]
102718374  EH domain-containing protein 1-like [KO:K12483]
102716759  vacuolar protein sorting-associated protein 45 homolog [KO:K12479]
102715208  ras-related protein RABE1c [KO:K07901]
102709912  ras-related protein RABE1c [KO:K07901]
102707978  ras-related protein RABE1d-like [KO:K07901]
102721747  ras-related protein RABE1c-like [KO:K07901]
102716456  ras-related protein RIC2-like [KO:K07904]
102710353  ras-related protein Rab2BV-like [KO:K07904]
102707662  ras-related protein RABA2a-like [KO:K07904]
102706755  ras-related protein RIC2-like [KO:K07904]
102710588  ras-related protein RABA2a-like [KO:K07904]
102710885  ras-related protein RIC2 [KO:K07904]
102701742  ras-related protein RABA5a [KO:K07904]
102715480  ras-related protein RGP2 [KO:K07904]
102713810  ras-related protein Rab2BV [KO:K07904]
102719684  ras-related protein RABA3-like [KO:K07904]
102717086  ras-related protein RABA5c-like [KO:K07904]
102720743  ras-related protein Rab11D-like [KO:K07904]
102699429  ras-related protein RGP1 [KO:K07904]
102707803  ras-related protein RABA3 [KO:K07904]
102711558  ras-related protein RABA1f-like [KO:K07904]
102722859  ras-related protein RABA1f [KO:K07904]
102709805  probable ADP-ribosylation factor GTPase-activating protein AGD11 [KO:K12486]
102705499  ADP-ribosylation factor GTPase-activating protein AGD12-like isoform X1 [KO:K12486]
102701696  ADP-ribosylation factor GTPase-activating protein AGD12-like isoform X2 [KO:K12486]
102722400  probable ADP-ribosylation factor GTPase-activating protein AGD11 isoform X1 [KO:K12486]
102718844  ADP-ribosylation factor GTPase-activating protein AGD12 isoform X1 [KO:K12486]
102703320  ADP-ribosylation factor GTPase-activating protein AGD5 isoform X2 [KO:K12486]
102722183  ADP-ribosylation factor GTPase-activating protein AGD2-like isoform X1 [KO:K12489]
102713207  ADP-ribosylation factor GTPase-activating protein AGD3-like [KO:K12489]
102704833  ADP-ribosylation factor GTPase-activating protein AGD3-like [KO:K12489]
102707664  probable ADP-ribosylation factor GTPase-activating protein AGD6 [KO:K12492]
102711964  probable ADP-ribosylation factor GTPase-activating protein AGD9 [KO:K12493]
102704838  probable ADP-ribosylation factor GTPase-activating protein AGD8 [KO:K12493]
102715545  brefeldin A-inhibited guanine nucleotide-exchange protein 1 [KO:K18442]
102704683  brefeldin A-inhibited guanine nucleotide-exchange protein 2 [KO:K18442]
102700632  brefeldin A-inhibited guanine nucleotide-exchange protein 1-like [KO:K18442]
102711131  ARF guanine-nucleotide exchange factor GNOM-like [KO:K18443]
102721831  ARF guanine-nucleotide exchange factor GNL2 [KO:K18443]
102705893  ARF guanine-nucleotide exchange factor GNOM [KO:K18443]
102722441  ADP-ribosylation factor 2 [KO:K07937]
102702606  ADP-ribosylation factor 2-like [KO:K07937]
102707589  ADP-ribosylation factor 2 isoform X2 [KO:K07937]
102703382  ADP-ribosylation factor 1-like [KO:K07937]
102717078  ADP-ribosylation factor 1 [KO:K07937]
102705918  ADP-ribosylation factor-like isoform X2 [KO:K07937]
102719735  ADP-ribosylation factor-like isoform X1 [KO:K07937]
102703460  ADP-ribosylation factor-like [KO:K07937]
102702599  ADP-ribosylation factor [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
obr04070  Phosphatidylinositol signaling system
obr04130  SNARE interactions in vesicular transport
KO pathway
ko04144   
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