KEGG   PATHWAY: ncc04140
Entry
ncc04140                    Pathway                                
Name
Autophagy - animal - Notothenia coriiceps (black rockcod)
Description
Autophagy (or macroautophagy) is a cellular catabolic pathway involving in protein degradation, organelle turnover, and non-selective breakdown of cytoplasmic components, which is evolutionarily conserved among eukaryotes and exquisitely regulated. This progress initiates with production of the autophagosome, a double-membrane intracellular structure of reticular origin that engulfs cytoplasmic contents and ultimately fuses with lysosomes for cargo degradation. Autophagy is regulated in response to extra- or intracellular stress and signals such as starvation, growth factor deprivation and ER stress. Constitutive level of autophagy plays an important role in cellular homeostasis and maintains quality control of essential cellular components.
Class
Cellular Processes; Transport and catabolism
Pathway map
ncc04140  Autophagy - animal
ncc04140

Other DBs
GO: 0006914
Organism
Notothenia coriiceps (black rockcod) [GN:ncc]
Gene
104961913  ins; insulin [KO:K04526]
104944906  insulin receptor substrate 1-B-like [KO:K16172]
104949454  insulin receptor substrate 1-B-like [KO:K16172]
104961594  insulin receptor substrate 2-like isoform X1 [KO:K07187]
104961599  insulin receptor substrate 2-B-like [KO:K07187]
104955106  insulin receptor substrate 2-like [KO:K07187]
104956376  LOW QUALITY PROTEIN: phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit delta isoform-like [KO:K00922] [EC:2.7.1.153]
104960975  pik3ca; phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit alpha isoform [KO:K00922] [EC:2.7.1.153]
104967189  LOW QUALITY PROTEIN: phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit alpha isoform-like [KO:K00922] [EC:2.7.1.153]
104960305  pik3r1; phosphatidylinositol 3-kinase regulatory subunit alpha isoform X1 [KO:K02649]
104958341  phosphatidylinositol 3-kinase regulatory subunit gamma-like isoform X1 [KO:K02649]
104944851  pik3r2; phosphatidylinositol 3-kinase regulatory subunit beta [KO:K02649]
104946911  phosphatidylinositol 3-kinase regulatory subunit gamma-like isoform X1 [KO:K02649]
104967941  pik3r3; phosphatidylinositol 3-kinase regulatory subunit gamma [KO:K02649]
104959044  phosphatidylinositol 3-kinase regulatory subunit alpha-like [KO:K02649]
104943527  phosphatidylinositol 3-kinase regulatory subunit alpha-like [KO:K02649]
104946334  pdpk1; 3-phosphoinositide-dependent protein kinase 1 [KO:K06276] [EC:2.7.11.1]
104953747  RAC-gamma serine/threonine-protein kinase-like [KO:K04456] [EC:2.7.11.1]
104965645  LOW QUALITY PROTEIN: RAC-beta serine/threonine-protein kinase-like [KO:K04456] [EC:2.7.11.1]
104949463  RAC-gamma serine/threonine-protein kinase-like [KO:K04456] [EC:2.7.11.1]
104949713  akt1; RAC-alpha serine/threonine-protein kinase [KO:K04456] [EC:2.7.11.1]
104949205  akt2; RAC-beta serine/threonine-protein kinase [KO:K04456] [EC:2.7.11.1]
104956663  pten; phosphatidylinositol 3,4,5-trisphosphate 3-phosphatase and dual-specificity protein phosphatase PTEN isoform X1 [KO:K01110] [EC:3.1.3.16 3.1.3.48 3.1.3.67]
104948001  hras; GTPase HRas [KO:K02833]
104968078  kras; GTPase KRas isoform X1 [KO:K07827]
104950842  GTPase HRas-like [KO:K07827]
104957687  mras; ras-related protein M-Ras [KO:K07831]
104964398  rras2; ras-related protein R-Ras2 isoform X1 [KO:K07830]
104946656  ras-related protein R-Ras-like [KO:K07830]
104958741  raf1; RAF proto-oncogene serine/threonine-protein kinase isoform X1 [KO:K04366] [EC:2.7.11.1]
104967860  map2k1; dual specificity mitogen-activated protein kinase kinase 1 [KO:K04368] [EC:2.7.12.2]
104963431  map2k2; dual specificity mitogen-activated protein kinase kinase 2 [KO:K04369] [EC:2.7.12.2]
104965132  dual specificity mitogen-activated protein kinase kinase 2-like [KO:K04369] [EC:2.7.12.2]
104942729  mitogen-activated protein kinase 1-like [KO:K04371] [EC:2.7.11.24]
104953360  mitogen-activated protein kinase 1 [KO:K04371] [EC:2.7.11.24]
104951026  epas1; endothelial PAS domain-containing protein 1 [KO:K08268]
104960365  LOW QUALITY PROTEIN: hypoxia-inducible factor 1-alpha-like [KO:K08268]
104960383  hypoxia-inducible factor 1-alpha-like [KO:K08268]
104953845  ddit4; DNA damage-inducible transcript 4 protein [KO:K08270]
104944330  DNA damage-inducible transcript 4 protein-like [KO:K08270]
104946556  tuberin-like [KO:K07207]
104947658  tsc1; hamartin [KO:K07206]
104956645  bnip3; BCL2/adenovirus E1B 19 kDa protein-interacting protein 3 [KO:K15464]
104965680  rheb; GTP-binding protein Rheb [KO:K07208]
104941415  rhebl1; GTPase RhebL1 [KO:K07208]
104945761  DEP domain-containing mTOR-interacting protein-like [KO:K20402]
104953461  DEP domain-containing mTOR-interacting protein-like [KO:K20402]
104956725  serine/threonine-protein kinase mTOR-like [KO:K07203] [EC:2.7.11.1]
104954396  akt1s1; proline-rich AKT1 substrate 1 [KO:K16184]
104963322  mlst8; target of rapamycin complex subunit LST8 [KO:K08266]
104965260  ribosomal protein S6 kinase beta-2-like [KO:K04688] [EC:2.7.11.1]
104949480  rps6kb1; ribosomal protein S6 kinase beta-1 isoform X1 [KO:K04688] [EC:2.7.11.1]
104965647  igbp1; immunoglobulin-binding protein 1 [KO:K17606]
104957031  serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
104947755  serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform-like [KO:K04382] [EC:3.1.3.16]
104961519  ulk1; serine/threonine-protein kinase ULK1 isoform X1 [KO:K21357] [EC:2.7.11.1]
104943547  serine/threonine-protein kinase ULK1-like isoform X1 [KO:K21357] [EC:2.7.11.1]
104954052  serine/threonine-protein kinase ULK2-like [KO:K08269] [EC:2.7.11.1]
104948990  atg13; autophagy-related protein 13 isoform X1 [KO:K08331]
104964803  atg101; autophagy-related protein 101 [KO:K19730]
104955960  rb1cc1; RB1-inducible coiled-coil protein 1 isoform X1 [KO:K17589]
104956023  autophagy-related protein 2 homolog A-like isoform X1 [KO:K17906]
104964301  autophagy-related protein 2 homolog A-like [KO:K17906]
104960911  atg2b; autophagy-related protein 2 homolog B isoform X1 [KO:K17906]
104956914  wipi2; WD repeat domain phosphoinositide-interacting protein 2 isoform X1 [KO:K17908]
104963460  wipi1; WD repeat domain phosphoinositide-interacting protein 1 isoform X1 [KO:K17908]
104944192  WD repeat domain phosphoinositide-interacting protein 1-like [KO:K17908]
104941525  wdr45b; WD repeat domain phosphoinositide-interacting protein 3 [KO:K22991]
104944648  wdr45; WD repeat domain phosphoinositide-interacting protein 4 [KO:K22991]
104958712  atg9a; autophagy-related protein 9A [KO:K17907]
104963896  atg9b; autophagy-related protein 9B [KO:K17907]
104965233  supt20h; LOW QUALITY PROTEIN: transcription factor SPT20 homolog [KO:K21245]
104951183  smith-Magenis syndrome chromosomal region candidate gene 8 protein homolog [KO:K23611]
104958634  smcr8; smith-Magenis syndrome chromosomal region candidate gene 8 protein [KO:K23611]
104958689  WD repeat-containing protein 41-like [KO:K23610]
104944875  ras-related protein Rab-3A-like [KO:K07901]
104955514  ras-related protein Rab-8A-like [KO:K07901]
104950312  ras-related protein Rab-8A [KO:K07901]
104951884  ras-related protein Rab-39B [KO:K07925]
104966994  ras-related protein Rab-39B-like [KO:K07925]
104955248  tank; TRAF family member-associated NF-kappa-B activator isoform X1 [KO:K12650]
104945897  ras-related protein ORAB-1-like [KO:K07874]
104962072  ras-related protein Rab-1A-like [KO:K07874]
104945801  ras-related GTP-binding protein A [KO:K16185]
104962781  ras-related GTP-binding protein C-like [KO:K16186]
104962795  ras-related GTP-binding protein C-like [KO:K16186]
104941898  rragc; ras-related GTP-binding protein C [KO:K16186]
104944252  ras-related GTP-binding protein D [KO:K16186]
104948984  stk11; serine/threonine-protein kinase STK11 isoform X1 [KO:K07298] [EC:2.7.11.1]
104959371  prkaa1; 5'-AMP-activated protein kinase catalytic subunit alpha-1 isoform X1 [KO:K07198] [EC:2.7.11.31]
104959556  prkaa2; 5'-AMP-activated protein kinase catalytic subunit alpha-2 [KO:K07198] [EC:2.7.11.31]
104960311  cAMP-dependent protein kinase catalytic subunit alpha [KO:K04345] [EC:2.7.11.11]
104956568  cAMP-dependent protein kinase catalytic subunit beta-like [KO:K04345] [EC:2.7.11.11]
104956098  cAMP-dependent protein kinase catalytic subunit alpha-like [KO:K04345] [EC:2.7.11.11]
104941347  prkacb; cAMP-dependent protein kinase catalytic subunit beta isoform X1 [KO:K04345] [EC:2.7.11.11]
104944044  prkcd; protein kinase C delta type [KO:K06068] [EC:2.7.11.13]
104962527  mapk8; mitogen-activated protein kinase 8 isoform X1 [KO:K04440] [EC:2.7.11.24]
104954536  mapk10; mitogen-activated protein kinase 10 isoform X1 [KO:K04440] [EC:2.7.11.24]
104965693  mapk9; mitogen-activated protein kinase 9 [KO:K04440] [EC:2.7.11.24]
104957668  apoptosis regulator Bcl-2-like [KO:K02161]
104945732  bcl-2-like protein 1 [KO:K04570]
104946618  bcl-2-like protein 1 [KO:K04570]
104948201  bad; bcl2-associated agonist of cell death [KO:K02158]
104967609  becn1; beclin-1 [KO:K08334]
104963471  nrbf2; nuclear receptor-binding factor 2 [KO:K21246]
104958187  pik3c3; phosphatidylinositol 3-kinase catalytic subunit type 3 isoform X1 [KO:K00914] [EC:2.7.1.137]
104948752  traf6; TNF receptor-associated factor 6 [KO:K03175] [EC:2.3.2.27]
104964922  tp53inp2; tumor protein p53-inducible nuclear protein 2 isoform X1 [KO:K21247]
104957828  tumor protein p53-inducible nuclear protein 2-like [KO:K21247]
104962373  vacuole membrane protein 1-like [KO:K21248]
104949484  vacuole membrane protein 1-like [KO:K21248]
104955618  stx17; syntaxin-17 [KO:K08491]
104963360  uvrag; UV radiation resistance-associated gene protein [KO:K21249]
104955778  endophilin-B1-like [KO:K11248]
104951928  kiaa0226; run domain Beclin-1 interacting and cysteine-rich containing protein [KO:K19330]
104945410  calcium/calmodulin-dependent protein kinase kinase 2-like [KO:K07359] [EC:2.7.11.17]
104945421  calcium/calmodulin-dependent protein kinase kinase 2-like [KO:K07359] [EC:2.7.11.17]
104967255  mitogen-activated protein kinase kinase kinase 7-like [KO:K04427] [EC:2.7.11.25]
104947845  mitogen-activated protein kinase kinase kinase 7-like [KO:K04427] [EC:2.7.11.25]
104958170  serine/threonine-protein kinase/endoribonuclease IRE1-like [KO:K08852] [EC:2.7.11.1 3.1.26.-]
104955082  itpr1; inositol 1,4,5-trisphosphate receptor type 1 [KO:K04958]
104966802  dapk3; death-associated protein kinase 3 [KO:K08803] [EC:2.7.11.1]
104955988  dapk1; death-associated protein kinase 1 [KO:K08803] [EC:2.7.11.1]
104953446  dapk2; death-associated protein kinase 2 isoform X1 [KO:K08803] [EC:2.7.11.1]
104966057  death-associated protein kinase 3-like isoform X1 [KO:K08803] [EC:2.7.11.1]
104942154  high mobility group-T protein-like [KO:K10802]
104966775  hmgb1; high mobility group protein B1 [KO:K10802]
104951808  eif2ak3; eukaryotic translation initiation factor 2-alpha kinase 3 [KO:K08860] [EC:2.7.11.1]
104950587  eif2ak4; eukaryotic translation initiation factor 2-alpha kinase 4 [KO:K16196] [EC:2.7.11.1]
104949319  mtmr4; myotubularin-related protein 4 [KO:K18082] [EC:3.1.3.48 3.1.3.64 3.1.3.95]
104945404  mtmr14; myotubularin-related protein 14 [KO:K18086] [EC:3.1.3.64 3.1.3.95]
104954711  zinc finger FYVE domain-containing protein 1-like [KO:K17603]
104944716  zinc finger FYVE domain-containing protein 1-like [KO:K17603]
104945225  zinc finger FYVE domain-containing protein 1-like [KO:K17603]
104960423  atg12; ubiquitin-like protein ATG12 [KO:K08336]
104944332  autophagy-related protein 16-2-like [KO:K20868]
104954607  atg7; ubiquitin-like modifier-activating enzyme ATG7 [KO:K08337]
104952848  atg10; ubiquitin-like-conjugating enzyme ATG10 [KO:K17888]
104964161  atg3; ubiquitin-like-conjugating enzyme ATG3 [KO:K08343]
104963314  cflar; CASP8 and FADD-like apoptosis regulator [KO:K04724]
104956419  ras-related protein Rab-33B-like [KO:K07920]
104958630  ras-related protein Rab-33B-like isoform X1 [KO:K07920]
104942425  ras-related protein Rab-33B-like [KO:K07920]
104958569  prkcq; protein kinase C theta type [KO:K18052] [EC:2.7.11.13]
104950885  gabarapl2; gamma-aminobutyric acid receptor-associated protein-like 2 [KO:K08341]
104963252  gamma-aminobutyric acid receptor-associated protein-like 2 [KO:K08341]
104960404  gamma-aminobutyric acid receptor-associated protein-like 1 [KO:K08341]
104945426  gabarap; gamma-aminobutyric acid receptor-associated protein [KO:K08341]
104950457  LOW QUALITY PROTEIN: microtubule-associated proteins 1A/1B light chain 3B-like [KO:K10435]
104964015  map1lc3c; microtubule-associated proteins 1A/1B light chain 3C [KO:K10435]
104942685  microtubule-associated proteins 1A/1B light chain 3C-like [KO:K10435]
104958087  atg4b; cysteine protease ATG4B [KO:K08342] [EC:3.4.22.-]
104962122  atg4c; cysteine protease ATG4C [KO:K08342] [EC:3.4.22.-]
104964056  atg4d; cysteine protease ATG4D [KO:K08342] [EC:3.4.22.-]
104945914  next to BRCA1 gene 1 protein-like [KO:K17987]
104960564  next to BRCA1 gene 1 protein-like [KO:K17987]
104961096  optn; optineurin [KO:K19946]
104945460  calcoco2; calcium-binding and coiled-coil domain-containing protein 2 isoform X1 [KO:K21348]
104949894  tax1-binding protein 1 homolog B-like isoform X1 [KO:K21347]
104941142  tax1-binding protein 1 homolog A-like [KO:K21347]
104942360  wdfy3; WD repeat and FYVE domain-containing protein 3 [KO:K22262]
104945454  ubiquitin-like [KO:K02927]
104958143  uba52; ubiquitin-60S ribosomal protein L40 [KO:K02927]
104963893  rps27a; ubiquitin-40S ribosomal protein S27a [KO:K02977]
104956680  snap29; synaptosomal-associated protein 29 [KO:K08509]
104960872  vesicle-associated membrane protein 8-like isoform X1 [KO:K08512]
104956789  ykt6; synaptobrevin homolog YKT6 [KO:K08516]
104966069  stx7; syntaxin-7 [KO:K08488]
104947805  epg5; ectopic P granules protein 5 homolog [KO:K23883]
104957046  plekhm1; pleckstrin homology domain-containing family M member 1 [KO:K23282]
104948334  vps18; vacuolar protein sorting-associated protein 18 homolog [KO:K20181]
104961761  vps33a; vacuolar protein sorting-associated protein 33A [KO:K20182]
104953672  vam6/Vps39-like protein [KO:K20183]
104954572  vps41; vacuolar protein sorting-associated protein 41 homolog [KO:K20184]
104945829  Golgi reassembly-stacking protein 1-like [KO:K26797]
104948269  gorasp2; Golgi reassembly-stacking protein 2 isoform X1 [KO:K26797]
104951970  Golgi reassembly-stacking protein 2-like [KO:K26797]
104945729  ras-related protein Rab-7a-like [KO:K07897]
104952574  rab7a; ras-related protein Rab-7a [KO:K07897]
104958735  lamp1; lysosome-associated membrane glycoprotein 1 [KO:K06528]
104951941  lysosome-associated membrane glycoprotein 1-like [KO:K06528]
104941333  lamp2; lysosome-associated membrane glycoprotein 2 isoform X1 [KO:K06528]
104967883  cathepsin D-like [KO:K01379] [EC:3.4.23.5]
104966021  ctsd; cathepsin D [KO:K01379] [EC:3.4.23.5]
104955950  ctsl; cathepsin L1 [KO:K01365] [EC:3.4.22.15]
104962698  cathepsin L1-like [KO:K01365] [EC:3.4.22.15]
104966683  cathepsin B-like [KO:K01363] [EC:3.4.22.1]
104947341  cathepsin B-like [KO:K01363] [EC:3.4.22.1]
Compound
C00035  GDP
C00044  GTP
C00350  Phosphatidylethanolamine
C01194  1-Phosphatidyl-D-myo-inositol
C04549  1-Phosphatidyl-1D-myo-inositol 3-phosphate
C05981  Phosphatidylinositol-3,4,5-trisphosphate
Reference
PMID:15325584
  Authors
Meijer AJ, Codogno P.
  Title
Regulation and role of autophagy in mammalian cells.
  Journal
Int J Biochem Cell Biol 36:2445-62 (2004)
DOI:10.1016/j.biocel.2004.02.002
Reference
PMID:16099218
  Authors
Deretic V.
  Title
Autophagy in innate and adaptive immunity.
  Journal
Trends Immunol 26:523-8 (2005)
DOI:10.1016/j.it.2005.08.003
Reference
PMID:16200202
  Authors
Levine B, Yuan J.
  Title
Autophagy in cell death: an innocent convict?
  Journal
J Clin Invest 115:2679-88 (2005)
DOI:10.1172/JCI26390
Reference
PMID:15325588
  Authors
Tanida I, Ueno T, Kominami E.
  Title
LC3 conjugation system in mammalian autophagy.
  Journal
Int J Biochem Cell Biol 36:2503-18 (2004)
DOI:10.1016/j.biocel.2004.05.009
Reference
PMID:15928708
  Authors
Lum JJ, DeBerardinis RJ, Thompson CB.
  Title
Autophagy in metazoans: cell survival in the land of plenty.
  Journal
Nat Rev Mol Cell Biol 6:439-48 (2005)
DOI:10.1038/nrm1660
Reference
PMID:15978794
  Authors
Reggiori F, Klionsky DJ.
  Title
Autophagosomes: biogenesis from scratch?
  Journal
Curr Opin Cell Biol 17:415-22 (2005)
DOI:10.1016/j.ceb.2005.06.007
Reference
PMID:11099404
  Authors
Klionsky DJ, Emr SD.
  Title
Autophagy as a regulated pathway of cellular degradation.
  Journal
Science 290:1717-21 (2000)
DOI:10.1126/science.290.5497.1717
Reference
PMID:16125113
  Authors
Bechet D, Tassa A, Taillandier D, Combaret L, Attaix D.
  Title
Lysosomal proteolysis in skeletal muscle.
  Journal
Int J Biochem Cell Biol 37:2098-114 (2005)
DOI:10.1016/j.biocel.2005.02.029
Reference
PMID:19653858
  Authors
He C, Klionsky DJ
  Title
Regulation mechanisms and signaling pathways of autophagy.
  Journal
Annu Rev Genet 43:67-93 (2009)
DOI:10.1146/annurev-genet-102808-114910
Reference
PMID:19802558
  Authors
Yang Z, Klionsky DJ
  Title
An overview of the molecular mechanism of autophagy.
  Journal
Curr Top Microbiol Immunol 335:1-32 (2009)
DOI:10.1007/978-3-642-00302-8_1
Reference
PMID:20034776
  Authors
Yang Z, Klionsky DJ
  Title
Mammalian autophagy: core molecular machinery and signaling regulation.
  Journal
Curr Opin Cell Biol 22:124-31 (2010)
DOI:10.1016/j.ceb.2009.11.014
Reference
PMID:21187343
  Authors
Chen Y, Klionsky DJ
  Title
The regulation of autophagy - unanswered questions.
  Journal
J Cell Sci 124:161-70 (2011)
DOI:10.1242/jcs.064576
Reference
PMID:21801009
  Authors
Mizushima N, Yoshimori T, Ohsumi Y
  Title
The role of Atg proteins in autophagosome formation.
  Journal
Annu Rev Cell Dev Biol 27:107-32 (2011)
DOI:10.1146/annurev-cellbio-092910-154005
Reference
PMID:24343578
  Authors
Russell RC, Yuan HX, Guan KL
  Title
Autophagy regulation by nutrient signaling.
  Journal
Cell Res 24:42-57 (2014)
DOI:10.1038/cr.2013.166
Reference
PMID:25948417
  Authors
Noda NN, Fujioka Y
  Title
Atg1 family kinases in autophagy initiation.
  Journal
Cell Mol Life Sci 72:3083-96 (2015)
DOI:10.1007/s00018-015-1917-z
Related
pathway
ncc04010  MAPK signaling pathway
ncc04141  Protein processing in endoplasmic reticulum
ncc04142  Lysosome
ncc04150  mTOR signaling pathway
ncc04910  Insulin signaling pathway
KO pathway
ko04140   
LinkDB

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