KEGG   PATHWAY: ncc04137
Entry
ncc04137                    Pathway                                
Name
Mitophagy - animal - Notothenia coriiceps (black rockcod)
Description
Mitochondria act as the energy powerhouse of the cell, and are essential for eukaryotic cells to grow and function normally. However, deleterious byproducts of oxidative phosphorylation process called reactive oxidative species (ROS) lead to mitochondrial dysfunction. If the damage is too excessive to be repaired, such mitochondria are selectively recognized and targeted for degradation by a specific mode of autophagy, termed mitophagy. The loss of the mitochondrial membrane potential can induce mitophagy, involving the kinase PINK1 and the E3 ligase Parkin. PINK1 serves as the sensor for the mitochondrial depolarization and recruits Parkin, followed by ubiquitin-dependent recruitment of mitophagy receptors. There are also several PINK1/Parkin-independent mitophagy pathways, in which a group of LIR-containing receptors are required in response to different stimuli. Mitophagy contributes to the maintenance of a healthy mitochondrial network and the prevention of programmed cell death.
Class
Cellular Processes; Transport and catabolism
Pathway map
ncc04137  Mitophagy - animal
ncc04137

Other DBs
GO: 0000422
Organism
Notothenia coriiceps (black rockcod) [GN:ncc]
Gene
104954105  mitochondrial import receptor subunit TOM40 homolog [KO:K11518]
104964651  mitochondrial import receptor subunit TOM40B-like [KO:K11518]
104963749  tomm40; mitochondrial import receptor subunit TOM40 homolog [KO:K11518]
104952061  tomm20; mitochondrial import receptor subunit TOM20 homolog [KO:K17770]
104966873  TNF receptor-associated factor 2-like [KO:K03173] [EC:2.3.2.27]
104953558  traf2; TNF receptor-associated factor 2 [KO:K03173] [EC:2.3.2.27]
104941091  TNF receptor-associated factor 2-like [KO:K03173] [EC:2.3.2.27]
104956912  smurf1; E3 ubiquitin-protein ligase SMURF1 isoform X1 [KO:K04678] [EC:2.3.2.26]
104947293  smurf2; E3 ubiquitin-protein ligase SMURF2 [KO:K04678] [EC:2.3.2.26]
104942184  amfr; E3 ubiquitin-protein ligase AMFR [KO:K10636] [EC:2.3.2.36]
104957797  mul1; mitochondrial ubiquitin ligase activator of NFKB 1 [KO:K15688] [EC:2.3.2.27]
104956573  mitochondrial ubiquitin ligase activator of nfkb 1-A-like [KO:K15688] [EC:2.3.2.27]
104951564  siah1; E3 ubiquitin-protein ligase SIAH1 [KO:K04506] [EC:2.3.2.27]
104966706  arih1; E3 ubiquitin-protein ligase ARIH1 isoform X1 [KO:K11968] [EC:2.3.2.31]
104947676  mitofusin-1-like [KO:K21356] [EC:3.6.5.-]
104960765  mitochondrial Rho GTPase 1-A-like [KO:K07870] [EC:3.6.5.-]
104947980  rhot1; mitochondrial Rho GTPase 1 isoform X1 [KO:K07870] [EC:3.6.5.-]
104946349  rhot2; mitochondrial Rho GTPase 2 [KO:K07871] [EC:3.6.5.-]
104945454  ubiquitin-like [KO:K02927]
104958143  uba52; ubiquitin-60S ribosomal protein L40 [KO:K02927]
104963893  rps27a; ubiquitin-40S ribosomal protein S27a [KO:K02977]
104949894  tax1-binding protein 1 homolog B-like isoform X1 [KO:K21347]
104941142  tax1-binding protein 1 homolog A-like [KO:K21347]
104945460  calcoco2; calcium-binding and coiled-coil domain-containing protein 2 isoform X1 [KO:K21348]
104961096  optn; optineurin [KO:K19946]
104945914  next to BRCA1 gene 1 protein-like [KO:K17987]
104960564  next to BRCA1 gene 1 protein-like [KO:K17987]
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]
104967609  becn1; beclin-1 [KO:K08334]
104966186  usp15; ubiquitin carboxyl-terminal hydrolase 15 isoform X1 [KO:K21343] [EC:3.4.19.12]
104962059  usp30; ubiquitin carboxyl-terminal hydrolase 30 isoform X1 [KO:K11851] [EC:3.4.19.12]
104945732  bcl-2-like protein 1 [KO:K04570]
104946618  bcl-2-like protein 1 [KO:K04570]
104953044  serine/threonine-protein phosphatase PGAM5, mitochondrial-like [KO:K15637] [EC:3.1.3.16]
104953038  serine/threonine-protein phosphatase PGAM5, mitochondrial-like [KO:K15637] [EC:3.1.3.16]
104967985  casein kinase II subunit alpha'-like [KO:K03097] [EC:2.7.11.1]
104965582  casein kinase II subunit alpha [KO:K03097] [EC:2.7.11.1]
104965727  casein kinase II subunit alpha'-like [KO:K03097] [EC:2.7.11.1]
104960282  casein kinase II subunit alpha-like [KO:K03097] [EC:2.7.11.1]
104953781  csnk2b; casein kinase II subunit beta [KO:K03115]
104965578  casein kinase II subunit beta [KO:K03115]
104966359  src; proto-oncogene tyrosine-protein kinase Src isoform X1 [KO:K05704] [EC:2.7.10.2]
104942589  proto-oncogene tyrosine-protein kinase Src isoform X1 [KO:K05704] [EC:2.7.10.2]
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]
104954636  fundc1; FUN14 domain-containing protein 1 isoform X1 [KO:K17986]
104956645  bnip3; BCL2/adenovirus E1B 19 kDa protein-interacting protein 3 [KO:K15464]
104961739  BCL2/adenovirus E1B 19 kDa protein-interacting protein 3-like [KO:K15465]
104947651  BCL2/adenovirus E1B 19 kDa protein-interacting protein 3-like [KO:K15465]
104947526  bcl2l13; bcl-2-like protein 13 [KO:K15485]
104964036  uncharacterized protein LOC104964036 [KO:K09574] [EC:5.2.1.8]
104964040  peptidyl-prolyl cis-trans isomerase FKBP8-like [KO:K09574] [EC:5.2.1.8]
104946131  fkbp8; peptidyl-prolyl cis-trans isomerase FKBP8 [KO:K09574] [EC:5.2.1.8]
104948868  samm50; sorting and assembly machinery component 50 homolog [KO:K07277]
104948416  sorting and assembly machinery component 50 homolog [KO:K07277]
104950984  nlrx1; NLR family member X1 isoform X1 [KO:K12653]
104953146  mtx3; metaxin-3 isoform X1 [KO:K17776]
104951808  eif2ak3; eukaryotic translation initiation factor 2-alpha kinase 3 [KO:K08860] [EC:2.7.11.1]
104967853  atf4; cyclic AMP-dependent transcription factor ATF-4 [KO:K04374]
104958969  cyclic AMP-dependent transcription factor ATF-4-like [KO:K04374]
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]
104964063  jun; transcription factor AP-1 [KO:K04448]
104967900  transcription factor AP-1-like [KO:K04448]
104962417  transcription factor AP-1-like [KO:K04448]
104965780  rela; LOW QUALITY PROTEIN: transcription factor p65 [KO:K04735]
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]
104951480  e2f1; transcription factor E2F1 [KO:K17454]
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]
104962038  transcription factor Sp1-like [KO:K04684]
104945430  tp53; cellular tumor antigen p53 [KO:K04451]
104966138  foxo3; forkhead box protein O3 [KO:K09408]
104963488  forkhead box protein O6-like isoform X1 [KO:K09408]
104954457  microphthalmia-associated transcription factor-like isoform X1 [KO:K09455]
104966973  microphthalmia-associated transcription factor-like [KO:K09455]
104942992  tfeb; transcription factor EB isoform X1 [KO:K15590]
104945760  tfe3; transcription factor E3 [KO:K09105]
104954277  rabgef1; rab5 GDP/GTP exchange factor isoform X1 [KO:K20131]
104954283  rab5 GDP/GTP exchange factor-like [KO:K20131]
104952314  rab5 GDP/GTP exchange factor-like [KO:K20131]
104947576  rab5 GDP/GTP exchange factor-like [KO:K20131]
104947906  ras-related protein Rab-5A [KO:K07887]
104953323  rab5a; ras-related protein Rab-5A [KO:K07887]
104967606  ras-related protein Rab-5C-like [KO:K07889]
104958098  ras-related protein Rab-5C [KO:K07889]
104945752  mon1a; vacuolar fusion protein MON1 homolog A [KO:K20195]
104951543  mon1b; vacuolar fusion protein MON1 homolog B [KO:K20195]
104957892  vacuolar fusion protein CCZ1 homolog [KO:K27045]
104945729  ras-related protein Rab-7a-like [KO:K07897]
104952574  rab7a; ras-related protein Rab-7a [KO:K07897]
104954389  tbc1d17; TBC1 domain family member 17 [KO:K19945]
104964901  fis1; mitochondrial fission 1 protein [KO:K17969]
104958712  atg9a; autophagy-related protein 9A [KO:K17907]
104963896  atg9b; autophagy-related protein 9B [KO:K17907]
104941303  dynamin-like 120 kDa protein, mitochondrial [KO:K17079] [EC:3.6.5.5]
104956096  vcp; transitional endoplasmic reticulum ATPase [KO:K13525]
Compound
C00035  GDP
C00044  GTP
Reference
  Authors
Pickrell AM, Youle RJ
  Title
The roles of PINK1, parkin, and mitochondrial fidelity in Parkinson's disease.
  Journal
Neuron 85:257-73 (2015)
DOI:10.1016/j.neuron.2014.12.007
Reference
  Authors
Durcan TM, Fon EA
  Title
The three 'P's of mitophagy: PARKIN, PINK1, and post-translational modifications.
  Journal
Genes Dev 29:989-99 (2015)
DOI:10.1101/gad.262758.115
Reference
  Authors
Shirihai OS, Song M, Dorn GW 2nd
  Title
How mitochondrial dynamism orchestrates mitophagy.
  Journal
Circ Res 116:1835-49 (2015)
DOI:10.1161/CIRCRESAHA.116.306374
Reference
  Authors
Hamacher-Brady A, Brady NR
  Title
Mitophagy programs: mechanisms and physiological implications of mitochondrial targeting by autophagy.
  Journal
Cell Mol Life Sci 73:775-95 (2016)
DOI:10.1007/s00018-015-2087-8
Reference
  Authors
Yamano K, Matsuda N, Tanaka K
  Title
The ubiquitin signal and autophagy: an orchestrated dance leading to mitochondrial degradation.
  Journal
EMBO Rep 17:300-16 (2016)
DOI:10.15252/embr.201541486
Reference
  Authors
Yamaguchi O, Murakawa T, Nishida K, Otsu K
  Title
Receptor-mediated mitophagy.
  Journal
J Mol Cell Cardiol 95:50-6 (2016)
DOI:10.1016/j.yjmcc.2016.03.010
Reference
  Authors
Roberts RF, Tang MY, Fon EA, Durcan TM
  Title
Defending the mitochondria: The pathways of mitophagy and mitochondrial-derived vesicles.
  Journal
Int J Biochem Cell Biol 79:427-436 (2016)
DOI:10.1016/j.biocel.2016.07.020
Reference
  Authors
Arena G, Valente EM
  Title
PINK1 in the limelight: multiple functions of an eclectic protein in human health and disease.
  Journal
J Pathol 241:251-263 (2017)
DOI:10.1002/path.4815
Related
pathway
ncc04140  Autophagy - animal
ncc04210  Apoptosis
KO pathway
ko04137   
LinkDB

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