ENTRY       mtr04144                    Pathway
NAME        Endocytosis - Medicago truncatula (barrel medic)
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 mtr04144  Endocytosis
DBLINKS     GO: 0006897
ORGANISM    Medicago truncatula (barrel medic) [GN:mtr]
GENE        11444132  phosphatidylinositol 4-phosphate 5-kinase 6 [KO:K00889] [EC:2.7.1.68]
            11439925  phosphatidylinositol 4-phosphate 5-kinase 7 isoform X1 [KO:K00889] [EC:2.7.1.68]
            11436818  phosphatidylinositol 4-phosphate 5-kinase 1 isoform X2 [KO:K00889] [EC:2.7.1.68]
            11424166  phosphatidylinositol 4-phosphate 5-kinase 6 [KO:K00889] [EC:2.7.1.68]
            11419058  phosphatidylinositol 4-phosphate 5-kinase 2 [KO:K00889] [EC:2.7.1.68]
            25495021  phosphatidylinositol 4-phosphate 5-kinase 1 [KO:K00889] [EC:2.7.1.68]
            25489878  phosphatidylinositol 4-phosphate 5-kinase 1 [KO:K00889] [EC:2.7.1.68]
            11429424  phosphatidylinositol 4-phosphate 5-kinase 5 [KO:K00889] [EC:2.7.1.68]
            25483935  phosphatidylinositol 4-phosphate 5-kinase 9 [KO:K00889] [EC:2.7.1.68]
            11408947  phosphatidylinositol 4-phosphate 5-kinase 5 [KO:K00889] [EC:2.7.1.68]
            25500438  phospholipase D alpha 4 [KO:K01115] [EC:3.1.4.4]
            11414625  phospholipase D delta isoform X1 [KO:K01115] [EC:3.1.4.4]
            11429900  phospholipase D alpha 4 [KO:K01115] [EC:3.1.4.4]
            11435279  phospholipase D alpha 1 [KO:K01115] [EC:3.1.4.4]
            11426765  phospholipase D alpha 1 [KO:K01115] [EC:3.1.4.4]
            25500982  phospholipase D beta 2 [KO:K01115] [EC:3.1.4.4]
            11416664  phospholipase D zeta 1 [KO:K01115] [EC:3.1.4.4]
            11436615  phospholipase D alpha 1 [KO:K01115] [EC:3.1.4.4]
            11436144  phospholipase D delta [KO:K01115] [EC:3.1.4.4]
            11420371  phospholipase D alpha 1 [KO:K01115] [EC:3.1.4.4]
            11437516  phospholipase D beta 1 [KO:K01115] [EC:3.1.4.4]
            11427071  LOW QUALITY PROTEIN: phospholipase D gamma 1 [KO:K01115] [EC:3.1.4.4]
            11430291  phospholipase D delta isoform X1 [KO:K01115] [EC:3.1.4.4]
            25488058  phospholipase D zeta 1 isoform X1 [KO:K01115] [EC:3.1.4.4]
            11428726  phospholipase D gamma 1 [KO:K01115] [EC:3.1.4.4]
            11420883  dynamin-2B [KO:K01528] [EC:3.6.5.5]
            25494375  dynamin-2B isoform X2 [KO:K01528] [EC:3.6.5.5]
            11411271  clathrin heavy chain 1 [KO:K04646]
            11408658  clathrin heavy chain 1 [KO:K04646]
            25490931  clathrin heavy chain 1 [KO:K04646]
            11420719  clathrin heavy chain 2 [KO:K04646]
            25487490  AP-2 complex subunit alpha-1 [KO:K11824]
            11424806  AP-2 complex subunit mu [KO:K11826]
            11419257  AP-2 complex subunit sigma [KO:K11827]
            25492518  epsin-3 [KO:K12471]
            11427962  clathrin interactor EPSIN 3 [KO:K12471]
            25482017  clathrin interactor EPSIN 1 [KO:K12471]
            11431287  epsin-3 [KO:K12471]
            11414218  uncharacterized calcium-binding protein C800.10c isoform X1 [KO:K12472]
            11433948  epidermal growth factor receptor substrate 15-like 1 [KO:K12472]
            11440155  protein EARLY-RESPONSIVE TO DEHYDRATION 7, chloroplastic [KO:K19366]
            25492774  protein EARLY-RESPONSIVE TO DEHYDRATION 7, chloroplastic [KO:K19366]
            11434922  protein EARLY-RESPONSIVE TO DEHYDRATION 7, chloroplastic isoform X1 [KO:K19366]
            25497745  actin-related protein 2 [KO:K17260]
            25501823  actin-related protein 3 [KO:K18584]
            11443510  actin-related protein 2/3 complex subunit 1B [KO:K05757]
            11418544  actin-related protein 2/3 complex subunit 2A [KO:K05758]
            25483028  actin-related protein 2/3 complex subunit 2B [KO:K05758]
            11437771  actin-related protein 2/3 complex subunit 3 isoform X1 [KO:K05756]
            11426571  actin-related protein 2/3 complex subunit 4 [KO:K05755]
            25485638  actin-related protein 2/3 complex subunit 5A isoform X1 [KO:K05754]
            25500028  actin-related protein 2/3 complex subunit 5A [KO:K05754]
            11433850  stromal 70 kDa heat shock-related protein, chloroplastic [KO:K03283]
            11442919  heat shock 70 kDa protein [KO:K03283]
            11438322  heat shock 70 kDa protein 4 [KO:K03283]
            11439333  heat shock 70 kDa protein [KO:K03283]
            11417074  heat shock 70 kDa protein 4 [KO:K03283]
            11437702  heat shock cognate 70 kDa protein [KO:K03283]
            11438126  heat shock cognate 70 kDa protein [KO:K03283]
            25496003  heat shock cognate 70 kDa protein [KO:K03283]
            25495984  LOW QUALITY PROTEIN: heat shock cognate 70 kDa protein [KO:K03283]
            25497411  LOW QUALITY PROTEIN: heat shock cognate 70 kDa protein [KO:K03283]
            25497853  heat shock cognate 70 kDa protein [KO:K03283]
            25499929  heat shock cognate 70 kDa protein [KO:K03283]
            11443306  heat shock cognate 70 kDa protein [KO:K03283]
            25500956  heat shock 70 kDa protein 4 [KO:K03283]
            25495969  heat shock 70 kDa protein 18 [KO:K03283]
            25495973  heat shock 70 kDa protein 18 [KO:K03283]
            25495977  heat shock 70 kDa protein 18 [KO:K03283]
            25495983  heat shock 70 kDa protein 18 [KO:K03283]
            25495985  heat shock cognate 70 kDa protein 2 [KO:K03283]
            25495997  heat shock 70 kDa protein 18 [KO:K03283]
            25491671  LOW QUALITY PROTEIN: heat shock cognate 70 kDa protein [KO:K03283]
            11419378  heat shock cognate 70 kDa protein [KO:K03283]
            25492495  heat shock cognate 70 kDa protein 2 [KO:K03283]
            25492496  heat shock cognate 70 kDa protein 2 [KO:K03283]
            11443124  heat shock 70 kDa protein [KO:K03283]
            11433698  heat shock cognate 70 kDa protein [KO:K03283]
            25486072  heat shock cognate 70 kDa protein [KO:K03283]
            11438302  heat shock cognate 70 kDa protein [KO:K03283]
            11443338  heat shock cognate 70 kDa protein 2 [KO:K03283]
            11443341  heat shock cognate 70 kDa protein 2 [KO:K03283]
            11440833  heat shock 70 kDa protein 4 [KO:K03283]
            11442942  heat shock 70 kDa protein 4 isoform X1 [KO:K03283]
            11438873  heat shock 70 kDa protein 4 [KO:K03283]
            11439796  heat shock cognate 70 kDa protein [KO:K03283]
            11440835  heat shock cognate 70 kDa protein [KO:K03283]
            11440836  heat shock cognate 70 kDa protein [KO:K03283]
            11440351  heat shock cognate 70 kDa protein [KO:K03283]
            11443351  heat shock 70 kDa protein 4 [KO:K03283]
            11446123  heat shock cognate 70 kDa protein [KO:K03283]
            11432624  heat shock cognate 70 kDa protein [KO:K03283]
            11430131  heat shock cognate 70 kDa protein [KO:K03283]
            11423681  heat shock cognate 70 kDa protein 2 [KO:K03283]
            11421362  F-actin-capping protein subunit alpha [KO:K10364]
            25485023  probable F-actin-capping protein subunit beta [KO:K10365]
            11438936  vacuolar protein sorting-associated protein 29 [KO:K18467]
            11429823  vacuolar protein sorting-associated protein 29 [KO:K18467]
            25500380  vacuolar protein sorting-associated protein 26B [KO:K18466]
            25488835  vacuolar protein sorting-associated protein 26A isoform X1 [KO:K18466]
            11423814  vacuolar protein sorting-associated protein 35A isoform X1 [KO:K18468]
            11413082  vacuolar protein sorting-associated protein 35B [KO:K18468]
            11417013  LOW QUALITY PROTEIN: AMSH-like ubiquitin thioesterase 1 [KO:K11866] [EC:3.4.19.12]
            11414692  AMSH-like ubiquitin thioesterase 3 [KO:K11866] [EC:3.4.19.12]
            11406347  AMSH-like ubiquitin thioesterase 2 isoform X1 [KO:K11866] [EC:3.4.19.12]
            11423551  AMSH-like ubiquitin thioesterase 1 isoform X2 [KO:K11866] [EC:3.4.19.12]
            11436176  ras-related protein Rab7 [KO:K07897]
            11434770  ras-related protein Rab7 [KO:K07897]
            25496256  ras-related protein Rab7 [KO:K07897]
            25481755  ras-related protein Rab7 isoform X1 [KO:K07897]
            112417794  ras-related protein Rab7 isoform X1 [KO:K07897]
            11411545  ras-related protein Rab7 [KO:K07897]
            11417478  ras-related protein Rab7 [KO:K07897]
            120580833  ras-related protein Rab7-like [KO:K07897]
            120580835  ras-related protein Rab7-like [KO:K07897]
            120580887  ras-related protein Rab7-like [KO:K07897]
            25485026  ras-related protein Rab7 [KO:K07897]
            11437710  protein ELC-like [KO:K12183]
            11439388  vacuolar protein sorting-associated protein 28 homolog 1 [KO:K12184]
            11431442  vacuolar protein-sorting-associated protein 37 homolog 1 [KO:K12185]
            11415352  vacuolar protein sorting-associated protein 22 homolog 1 [KO:K12188]
            25497931  vacuolar protein sorting-associated protein 22 homolog 1 [KO:K12188]
            11410802  vacuolar protein sorting-associated protein 36 [KO:K12190]
            11413655  vacuolar protein sorting-associated protein 25 [KO:K12189]
            11420731  vacuolar protein sorting-associated protein 20 homolog 2 [KO:K12195]
            11413678  vacuolar protein sorting-associated protein 32 homolog 2 [KO:K12194]
            11409610  vacuolar protein sorting-associated protein 32 homolog 1-like [KO:K12194]
            25497002  vacuolar protein sorting-associated protein 32 homolog 2 [KO:K12194]
            25492378  vacuolar protein sorting-associated protein 24 homolog 1 [KO:K12193]
            25500541  vacuolar protein sorting-associated protein 2 homolog 1 [KO:K12191]
            25486474  vacuolar protein sorting-associated protein 2 homolog 1 [KO:K12191]
            25486687  vacuolar protein sorting-associated protein 2 homolog 2 [KO:K12191]
            25499281  vacuolar protein sorting-associated protein 2 homolog 3 [KO:K12192]
            25484236  vacuolar protein sorting-associated protein 2 homolog 3 [KO:K12192]
            11426637  uncharacterized protein LOC11426637 [KO:K15053]
            11443598  protein SUPPRESSOR OF K(+) TRANSPORT GROWTH DEFECT 1 [KO:K12196]
            11412911  protein SUPPRESSOR OF K(+) TRANSPORT GROWTH DEFECT 1 [KO:K12196]
            11446229  protein SUPPRESSOR OF K(+) TRANSPORT GROWTH DEFECT 1 [KO:K12196]
            120576815  callose synthase 3 [KO:K12199]
            11432014  protein HOMOLOG OF MAMMALIAN LYST-INTERACTING PROTEIN 5 [KO:K12199]
            11433436  ESCRT-related protein CHMP1B [KO:K12197]
            11418361  vacuolar protein sorting-associated protein 60.1 [KO:K12198]
            11440696  vacuolar-sorting protein BRO1 [KO:K12200]
            25493623  maspardin [KO:K19367]
            25483797  sorting nexin 1 [KO:K17917]
            11406551  ras-related protein RHN1 isoform X1 [KO:K07888]
            11427184  ras-related protein RHN1 [KO:K07889]
            11417941  ras-related protein RHN1 [KO:K07889]
            11435335  ras-related protein RHN1 [KO:K07889]
            11440367  EH domain-containing protein 2 isoform X1 [KO:K12483]
            25489034  EH domain-containing protein 1 [KO:K12483]
            11440107  EH domain-containing protein 1 [KO:K12483]
            25489040  EH domain-containing protein 1 [KO:K12483]
            11432013  EH domain-containing protein 1 [KO:K12483]
            25489769  vacuolar protein sorting-associated protein 45 homolog [KO:K12479]
            25485703  ras-related protein RABE1c [KO:K07901]
            11416096  ras-related protein RABE1c [KO:K07901]
            11412245  ras-related protein RABE1c [KO:K07901]
            11425056  ras-related protein RABE1a [KO:K07901]
            11420796  ras-related protein RABE1a [KO:K07901]
            11432353  ras-related protein RABE1a [KO:K07901]
            11425116  ras-related protein RABA2a [KO:K07904]
            11446076  ras-related protein RABA1f [KO:K07904]
            11409641  ras-related protein RABA3 [KO:K07904]
            11416438  ras-related protein RABA1b [KO:K07904]
            11408702  ras-related protein Rab11D [KO:K07904]
            25480757  ras-related protein RABA4d [KO:K07904]
            11408299  ras-related protein Rab11C [KO:K07904]
            25501032  ras-related protein RABA4c [KO:K07904]
            25484592  ras-related protein RABA5a isoform X2 [KO:K07904]
            11417615  ras-related protein Rab11A [KO:K07904]
            25501877  ras-related protein Rab11A [KO:K07904]
            25499790  ras-related protein RABA5e [KO:K07904]
            11421403  ras-related protein RABA3-like [KO:K07904]
            11414120  ras-related protein RABA1f [KO:K07904]
            25492545  ras-related protein Rab11C [KO:K07904]
            25493057  ras-related protein RABA1f [KO:K07904]
            25483401  ras-related protein RABA4d [KO:K07904]
            11445104  probable ADP-ribosylation factor GTPase-activating protein AGD11 [KO:K12486]
            11412939  probable ADP-ribosylation factor GTPase-activating protein AGD13 [KO:K12486]
            11407804  ADP-ribosylation factor GTPase-activating protein AGD5 [KO:K12486]
            11424187  probable ADP-ribosylation factor GTPase-activating protein AGD11 isoform X1 [KO:K12486]
            25502554  ADP-ribosylation factor GTPase-activating protein AGD5 isoform X1 [KO:K12486]
            11408349  ADP-ribosylation factor GTPase-activating protein AGD12-like [KO:K12486]
            11411648  probable ADP-ribosylation factor GTPase-activating protein AGD15 [KO:K12486]
            11434092  ADP-ribosylation factor GTPase-activating protein AGD1 isoform X1 [KO:K12489]
            25492818  ADP-ribosylation factor GTPase-activating protein AGD2 [KO:K12489]
            11441813  ADP-ribosylation factor GTPase-activating protein AGD3 [KO:K12489]
            25484131  ADP-ribosylation factor GTPase-activating protein AGD7 [KO:K12492]
            11419488  ADP-ribosylation factor GTPase-activating protein AGD7 [KO:K12492]
            11418528  probable ADP-ribosylation factor GTPase-activating protein AGD8 isoform X1 [KO:K12493]
            11440486  probable ADP-ribosylation factor GTPase-activating protein AGD8 [KO:K12493]
            25501014  brefeldin A-inhibited guanine nucleotide-exchange protein 2 [KO:K18442]
            11430236  brefeldin A-inhibited guanine nucleotide-exchange protein 1 isoform X1 [KO:K18442]
            11427277  brefeldin A-inhibited guanine nucleotide-exchange protein 2 [KO:K18442]
            11437178  ARF guanine-nucleotide exchange factor GNL2 [KO:K18443]
            25489342  ARF guanine-nucleotide exchange factor GNOM [KO:K18443]
            25489344  ARF guanine-nucleotide exchange factor GNOM [KO:K18443]
            11438427  ARF guanine-nucleotide exchange factor GNOM [KO:K18443]
            25494605  ADP-ribosylation factor 2 [KO:K07937]
            11437745  ADP-ribosylation factor [KO:K07937]
            11423544  ADP-ribosylation factor [KO:K07937]
            11440933  ADP-ribosylation factor [KO:K07937]
            11406279  ADP-ribosylation factor 2 [KO:K07937]
            11416588  ADP-ribosylation factor 2 [KO:K07937]
            11430247  ADP-ribosylation factor 1 [KO:K07937]
            11408220  ADP-ribosylation factor [KO:K07937]
            11433594  ADP-ribosylation factor 1 [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
REL_PATHWAY mtr04070  Phosphatidylinositol signaling system
            mtr04130  SNARE interactions in vesicular transport
KO_PATHWAY  ko04144
///
