KEGG   PATHWAY: nni04144
Entry
nni04144                    Pathway                                
Name
Endocytosis - Nipponia nippon (crested ibis)
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
nni04144  Endocytosis
nni04144

Other DBs
GO: 0006897
Organism
Nipponia nippon (crested ibis) [GN:nni]
Gene
104008567  [KO:K12475]
104008676  PIP5K1B; phosphatidylinositol 4-phosphate 5-kinase type-1 beta [KO:K00889] [EC:2.7.1.68]
104008680  VPS28; vacuolar protein sorting-associated protein 28 homolog [KO:K12184]
104008684  RHOA; transforming protein RhoA [KO:K04513]
104008757  [KO:K04707] [EC:2.3.2.27]
104008804  VTA1; vacuolar protein sorting-associated protein VTA1 homolog [KO:K12199]
104008940  PRKCZ; protein kinase C zeta type isoform X1 [KO:K18952] [EC:2.7.11.13]
104008963  ACAP3; arf-GAP with coiled-coil, ANK repeat and PH domain-containing protein 3 [KO:K12489]
104008970  VPS37C; LOW QUALITY PROTEIN: vacuolar protein sorting-associated protein 37C [KO:K12185]
104009142  [KO:K06751]
104009180  DAB2; disabled homolog 2 [KO:K12475]
104009190  SH3GL2; endophilin-A1 [KO:K11247]
104009245  DNAJC6; putative tyrosine-protein phosphatase auxilin [KO:K09526]
104009292  ZFYVE9; zinc finger FYVE domain-containing protein 9 isoform X1 [KO:K04679]
104009297  EPS15; epidermal growth factor receptor substrate 15 [KO:K12472]
104009467  ADRBK1; beta-adrenergic receptor kinase 1 [KO:K00910] [EC:2.7.11.15]
104009542  SNX5; sorting nexin-5 [KO:K17920]
104009559  SRC; proto-oncogene tyrosine-protein kinase Src [KO:K05704] [EC:2.7.10.2]
104009715  CLTCL1; clathrin heavy chain 2 isoform X1 [KO:K04646]
104009782  ACTR3; actin-related protein 3 [KO:K18584]
104009787  CXCR4; C-X-C chemokine receptor type 4 [KO:K04189]
104009792  KIF5C; kinesin heavy chain isoform 5C [KO:K10396] [EC:5.6.1.3]
104009818  ARAP2; arf-GAP with Rho-GAP domain, ANK repeat and PH domain-containing protein 2 [KO:K18440]
104009874  RAB5C; ras-related protein Rab-5C isoform X1 [KO:K07889]
104009937  VPS25; vacuolar protein-sorting-associated protein 25 [KO:K12189]
104010008  AGAP1; arf-GAP with GTPase, ANK repeat and PH domain-containing protein 1 [KO:K12491]
104010076  [KO:K05050]
104010112  ARPC2; actin-related protein 2/3 complex subunit 2 [KO:K05758]
104010355  CAPZA1; F-actin-capping protein subunit alpha-1 [KO:K10364]
104010441  DNM3; dynamin-3 [KO:K01528] [EC:3.6.5.5]
104010490  [KO:K05068]
104010511  TSG101; tumor susceptibility gene 101 protein [KO:K12183]
104010819  ZFYVE20; rabenosyn-5 [KO:K12481]
104010832  NEDD4L; E3 ubiquitin-protein ligase NEDD4-like isoform X1 [KO:K13305] [EC:2.3.2.26]
104010865  SPG20; spartin isoform X1 [KO:K19366]
104010939  VPS36; vacuolar protein-sorting-associated protein 36 [KO:K12190]
104011004  MDM2; E3 ubiquitin-protein ligase Mdm2 isoform X1 [KO:K06643] [EC:2.3.2.27]
104011059  [KO:K12474]
104011144  SNX3; sorting nexin-3 [KO:K17918]
104011178  CAPZB; F-actin-capping protein subunit beta isoform X1 [KO:K10365]
104011199  CDC42; cell division control protein 42 homolog isoform X1 [KO:K04393]
104011280  VPS35; vacuolar protein sorting-associated protein 35 [KO:K18468]
104011316  ARPC5; actin-related protein 2/3 complex subunit 5 [KO:K05754]
104011508  RAB35; ras-related protein Rab-35 [KO:K07876]
104011536  AGAP3; arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 [KO:K12491]
104011697  EEA1; early endosome antigen 1 [KO:K12478]
104011804  SNX6; sorting nexin-6 [KO:K17920]
104011819  WASL; neural Wiskott-Aldrich syndrome protein [KO:K23612]
104011873  [KO:K13649]
104011946  PSD3; PH and SEC7 domain-containing protein 3 [KO:K12494]
104012123  [KO:K04180]
104012124  [KO:K04180]
104012151  PDCD6IP; programmed cell death 6-interacting protein [KO:K12200]
104012236  SNF8; vacuolar-sorting protein SNF8 [KO:K12188]
104012332  WIPF2; LOW QUALITY PROTEIN: WAS/WASL-interacting protein family member 2 [KO:K19475]
104012363  STAM2; signal transducing adapter molecule 2 [KO:K04705]
104012397  DNM2; dynamin-2 [KO:K23484]
104012443  EGFR; epidermal growth factor receptor [KO:K04361] [EC:2.7.10.1]
104012449  SNX2; sorting nexin-2 [KO:K17917]
104012482  VPS37D; vacuolar protein sorting-associated protein 37D [KO:K12185]
104012511  IQSEC1; IQ motif and SEC7 domain-containing protein 1 [KO:K12495]
104012682  ARFGAP3; ADP-ribosylation factor GTPase-activating protein 3 [KO:K12493]
104012848  CHMP1B; charged multivesicular body protein 1b [KO:K12197]
104012898  SNX12; sorting nexin-12 [KO:K17918]
104012899  IL2RG; LOW QUALITY PROTEIN: cytokine receptor common subunit gamma [KO:K05070]
104013020  ASAP2; arf-GAP with SH3 domain, ANK repeat and PH domain-containing protein 2 [KO:K12488]
104013044  RAB22A; ras-related protein Rab-22A [KO:K07891]
104013075  ARFGEF2; brefeldin A-inhibited guanine nucleotide-exchange protein 2 [KO:K18442]
104013102  PARD6B; partitioning defective 6 homolog beta [KO:K06093]
104013314  STAM; signal transducing adapter molecule 1 [KO:K04705]
104013349  FAM21C; WASH complex subunit FAM21C [KO:K18462]
104013368  KIAA1033; WASH complex subunit 7 [KO:K18465]
104013377  CCDC53; WASH complex subunit CCDC53 [KO:K18463]
104013424  CHMP5; charged multivesicular body protein 5 [KO:K12198]
104013481  RUFY2; RUN and FYVE domain-containing protein 2 isoform X1 [KO:K12482]
104013542  VPS26A; vacuolar protein sorting-associated protein 26A [KO:K18466]
104013587  CAPZA2; F-actin-capping protein subunit alpha-2 [KO:K10364]
104013626  CAV1; caveolin-1 [KO:K06278]
104013627  CAV2; caveolin-2 [KO:K12958]
104013667  ZFYVE27; protrudin [KO:K19368]
104013740  RNF41; E3 ubiquitin-protein ligase NRDP1 [KO:K11981] [EC:2.3.2.27]
104013809  IGF2R; LOW QUALITY PROTEIN: cation-independent mannose-6-phosphate receptor [KO:K06564]
104013882  TGFBR2; TGF-beta receptor type-2 [KO:K04388] [EC:2.7.11.30]
104013901  RAB5A; ras-related protein Rab-5A isoform X1 [KO:K07887]
104013973  WIPF3; WAS/WASL-interacting protein family member 3 [KO:K19475]
104014065  CLTA; clathrin light chain A [KO:K04644]
104014116  CBLB; E3 ubiquitin-protein ligase CBL-B [KO:K22517] [EC:2.3.2.27]
104014335  CHMP6; charged multivesicular body protein 6 [KO:K12195]
104014365  SMURF2; E3 ubiquitin-protein ligase SMURF2 [KO:K04678] [EC:2.3.2.26]
104014379  RAB11FIP4; rab11 family-interacting protein 4 [KO:K12485]
104014454  PIP5K1A; phosphatidylinositol 4-phosphate 5-kinase type-1 alpha [KO:K00889] [EC:2.7.1.68]
104014782  RAB10; ras-related protein Rab-10 [KO:K07903]
104014839  [KO:K13649]
104014903  ACTR3B; actin-related protein 3B [KO:K18584]
104015010  CHMP2B; charged multivesicular body protein 2b [KO:K12192]
104015104  ARPC1A; actin-related protein 2/3 complex subunit 1A [KO:K05757]
104015105  ARPC1B; actin-related protein 2/3 complex subunit 1B [KO:K05757]
104015131  EPN2; LOW QUALITY PROTEIN: epsin-2 [KO:K12471]
104015197  CYTH3; cytohesin-3 [KO:K18441]
104015226  SMURF1; E3 ubiquitin-protein ligase SMURF1 [KO:K04678] [EC:2.3.2.26]
104015475  SH3GLB1; endophilin-B1 [KO:K11248]
104015631  AP2M1; AP-2 complex subunit mu isoform X1 [KO:K11826]
104015660  TFRC; transferrin receptor protein 1 [KO:K06503]
104015681  ACAP2; arf-GAP with coiled-coil, ANK repeat and PH domain-containing protein 2 [KO:K12489]
104016055  RAB11FIP1; rab11 family-interacting protein 1 [KO:K12484]
104016063  [KO:K08291] [EC:2.7.11.16]
104016096  AP2B1; AP-2 complex subunit beta isoform X1 [KO:K11825]
104016109  RABEP1; rab GTPase-binding effector protein 1 [KO:K12480]
104016390  GRK7; G protein-coupled receptor kinase 7 [KO:K00909] [EC:2.7.11.14]
104016573  ARAP3; arf-GAP with Rho-GAP domain, ANK repeat and PH domain-containing protein 3 [KO:K12490]
104016578  CLTC; clathrin heavy chain 1 isoform X1 [KO:K04646]
104016627  HSPA8; heat shock cognate 71 kDa protein isoform X1 [KO:K03283]
104016635  VPS26B; vacuolar protein sorting-associated protein 26B [KO:K18466]
104016781  SNX1; sorting nexin-1 [KO:K17917]
104016797  [KO:K10054] [EC:2.3.2.-]
104016799  [KO:K10054] [EC:2.3.2.-]
104016869  ASAP1; LOW QUALITY PROTEIN: arf-GAP with SH3 domain, ANK repeat and PH domain-containing protein 1 [KO:K12488]
104016951  CAV3; caveolin-3 [KO:K12959]
104017045  SMAD3; mothers against decapentaplegic homolog 3 [KO:K23605]
104017060  SPG21; maspardin isoform X1 [KO:K19367]
104017106  SH3GL3; endophilin-A3 [KO:K11247]
104017116  USP8; ubiquitin carboxyl-terminal hydrolase 8 isoform X1 [KO:K11839] [EC:3.4.19.12]
104017160  NEDD4; E3 ubiquitin-protein ligase NEDD4 isoform X1 [KO:K10591] [EC:2.3.2.26]
104017210  RAB11A; ras-related protein Rab-11A [KO:K07904]
104017228  IGF1R; insulin-like growth factor 1 receptor [KO:K05087] [EC:2.7.10.1]
104017304  HRAS; GTPase HRas [KO:K02833]
104017323  AP2A2; AP-2 complex subunit alpha-2 [KO:K11824]
104017334  ARF5; ADP-ribosylation factor 5 [KO:K07940]
104017465  PARD6A; partitioning defective 6 homolog alpha [KO:K06093]
104017466  RAB5B; ras-related protein Rab-5B isoform X1 [KO:K07888]
104017696  RAB31; ras-related protein Rab-31 [KO:K07891]
104017727  LDLRAP1; low density lipoprotein receptor adapter protein 1 [KO:K12474]
104017776  SMAP2; stromal membrane-associated protein 2 isoform X1 [KO:K12486]
104017822  ASAP3; arf-GAP with SH3 domain, ANK repeat and PH domain-containing protein 3 [KO:K12488]
104017965  CAPZA3; F-actin-capping protein subunit alpha-3 [KO:K10364]
104017980  KIAA0196; WASH complex subunit strumpellin [KO:K18464]
104018057  GRK4; G protein-coupled receptor kinase 4 isoform X1 [KO:K08291] [EC:2.7.11.16]
104018093  FGFR3; fibroblast growth factor receptor 3 [KO:K05094] [EC:2.7.10.1]
104018186  RAB4A; ras-related protein Rab-4A [KO:K07879]
104018209  PARD6G; partitioning defective 6 homolog gamma [KO:K06093]
104018260  VPS45; vacuolar protein sorting-associated protein 45 [KO:K12479]
104018414  MVB12A; multivesicular body subunit 12A [KO:K12186]
104018441  RUFY1; RUN and FYVE domain-containing protein 1 isoform X1 [KO:K12482]
104018504  ARFGEF1; brefeldin A-inhibited guanine nucleotide-exchange protein 1 [KO:K18442]
104018537  [KO:K12193]
104018613  HGS; LOW QUALITY PROTEIN: hepatocyte growth factor-regulated tyrosine kinase substrate [KO:K12182]
104018616  CYTH1; cytohesin-1 isoform X1 [KO:K18441]
104018628  AMPH; amphiphysin [KO:K12562]
104018694  CHMP4C; charged multivesicular body protein 4c [KO:K24782]
104018727  EPS15L1; epidermal growth factor receptor substrate 15-like 1 [KO:K12472]
104018731  RAB8A; ras-related protein Rab-8A [KO:K07901]
104018747  SH3GL1; endophilin-A2 isoform X1 [KO:K11247]
104018762  SNX4; sorting nexin-4 [KO:K17919]
104018940  ACTR2; actin-related protein 2 [KO:K17260]
104018951  GRK6; G protein-coupled receptor kinase 6 [KO:K08291] [EC:2.7.11.16]
104018985  CLTB; LOW QUALITY PROTEIN: clathrin light chain B [KO:K04645]
104018994  FGFR4; fibroblast growth factor receptor 4 [KO:K05095] [EC:2.7.10.1]
104019053  [KO:K04707] [EC:2.3.2.27]
104019172  RAB11FIP5; rab11 family-interacting protein 5 [KO:K12484]
104019266  EHD3; EH domain-containing protein 3 [KO:K12476]
104019454  ARF6; ADP-ribosylation factor 6 [KO:K07941]
104019541  CHMP7; charged multivesicular body protein 7 [KO:K15053]
104019550  ARPC3; actin-related protein 2/3 complex subunit 3 [KO:K05756]
104019573  [KO:K03175] [EC:2.3.2.27]
104019592  VPS37B; vacuolar protein sorting-associated protein 37B [KO:K12185]
104019619  RAB11B; ras-related protein Rab-11B isoform X1 [KO:K07905]
104019631  PIP5K1C; phosphatidylinositol 4-phosphate 5-kinase type-1 gamma [KO:K00889] [EC:2.7.1.68]
104019646  GBF1; golgi-specific brefeldin A-resistance guanine nucleotide exchange factor 1 [KO:K18443]
104019915  ITCH; E3 ubiquitin-protein ligase Itchy homolog isoform X1 [KO:K05632] [EC:2.3.2.26]
104019966  [KO:K12488]
104019975  CHMP4B; charged multivesicular body protein 4b [KO:K12194]
104020043  ARFGAP1; ADP-ribosylation factor GTPase-activating protein 1 isoform X1 [KO:K12492]
104020224  IQSEC3; IQ motif and SEC7 domain-containing protein 3 [KO:K12495]
104020225  [KO:K18461]
104020241  [KO:K04388] [EC:2.7.11.30]
104020382  ARFGAP2; ADP-ribosylation factor GTPase-activating protein 2 [KO:K12493]
104020388  BIN1; myc box-dependent-interacting protein 1 [KO:K12562]
104020444  EHD4; EH domain-containing protein 4 [KO:K12477]
104020459  ADRBK2; beta-adrenergic receptor kinase 2 [KO:K00910] [EC:2.7.11.15]
104020490  GIT2; ARF GTPase-activating protein GIT2 [KO:K12487]
104020514  KIF5A; kinesin heavy chain isoform 5A [KO:K10396] [EC:5.6.1.3]
104020574  FGFR2; LOW QUALITY PROTEIN: fibroblast growth factor receptor 2 [KO:K05093] [EC:2.7.10.1]
104020686  EPN3; epsin-3 [KO:K12471]
104020693  VPS29; vacuolar protein sorting-associated protein 29 [KO:K18467]
104020776  PDGFRA; platelet-derived growth factor receptor alpha [KO:K04363] [EC:2.7.10.1]
104020834  VPS37A; vacuolar protein sorting-associated protein 37A [KO:K12185]
104021021  PSD; PH and SEC7 domain-containing protein 1 [KO:K12494]
104021134  EHD2; EH domain-containing protein 2 [KO:K12469]
104021591  CYTH4; cytohesin-4 [KO:K18441]
104021601  [KO:K17917]
104021663  [KO:K19367]
104021675  IL2RB; interleukin-2 receptor subunit beta [KO:K05069]
104021730  ARF1; ADP-ribosylation factor 1 [KO:K07937]
104021869  TGFBR1; TGF-beta receptor type-1 [KO:K04674] [EC:2.7.11.30]
104021918  VPS4B; vacuolar protein sorting-associated protein 4B [KO:K12196]
104022040  SMAP1; stromal membrane-associated protein 1 [KO:K12486]
104022050  PRKCI; protein kinase C iota type [KO:K06069] [EC:2.7.11.13]
104022057  PLD1; phospholipase D1 isoform X1 [KO:K01115] [EC:3.1.4.4]
104022280  KIF5B; kinesin-1 heavy chain [KO:K10396] [EC:5.6.1.3]
104022281  PARD3; partitioning defective 3 homolog [KO:K04237]
104022353  RAB11FIP2; rab11 family-interacting protein 2 [KO:K12484]
104022391  GRK5; G protein-coupled receptor kinase 5 [KO:K08291] [EC:2.7.11.16]
104022516  SH3KBP1; SH3 domain-containing kinase-binding protein 1 [KO:K12470]
104022657  RAB7A; ras-related protein Rab-7a isoform X1 [KO:K07897]
104022674  CHMP2A; charged multivesicular body protein 2a [KO:K12191]
104022686  ARF4; ADP-ribosylation factor 4 [KO:K07939]
104022749  ARAP1; LOW QUALITY PROTEIN: arf-GAP with Rho-GAP domain, ANK repeat and PH domain-containing protein 1 [KO:K18439]
104022751  ARRB1; beta-arrestin-1 [KO:K04439]
104022786  WWP1; NEDD4-like E3 ubiquitin-protein ligase WWP1 [KO:K05633] [EC:2.3.2.26]
104022981  STAMBP; STAM-binding protein [KO:K11866] [EC:3.4.19.12]
104022987  ZFYVE16; zinc finger FYVE domain-containing protein 16 [KO:K04679]
104023152  SH3GLB2; endophilin-B2 [KO:K21269]
104023232  MVB12B; multivesicular body subunit 12B [KO:K12186]
104023251  DNM1; LOW QUALITY PROTEIN: dynamin-1 [KO:K01528] [EC:3.6.5.5]
104023327  ARPC5L; actin-related protein 2/3 complex subunit 5-like protein [KO:K05754]
104023395  [KO:K05737]
104023519  RAB11FIP3; rab11 family-interacting protein 3 [KO:K12485]
104023553  IST1; IST1 homolog isoform X1 [KO:K19476]
104023592  PSD2; PH and SEC7 domain-containing protein 2 [KO:K12494]
104023614  [KO:K12196]
104023630  CHMP1A; charged multivesicular body protein 1a [KO:K12197]
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
nni04060  Cytokine-cytokine receptor interaction
nni04070  Phosphatidylinositol signaling system
nni04130  SNARE interactions in vesicular transport
nni04142  Lysosome
nni04350  TGF-beta signaling pathway
KO pathway
ko04144   

DBGET integrated database retrieval system