KEGG   PATHWAY: nni04137
Entry
nni04137                    Pathway                                
Name
Mitophagy - animal - Nipponia nippon (crested ibis)
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
nni04137  Mitophagy - animal
nni04137

Other DBs
GO: 0000422
Organism
Nipponia nippon (crested ibis) [GN:nni]
Gene
104008759  NLRX1; NLR family member X1 [KO:K12653]
104008805  CITED2; LOW QUALITY PROTEIN: cbp/p300-interacting transactivator 2 [KO:K21361]
104009006  MFN2; mitofusin-2 [KO:K06030] [EC:3.6.5.-]
104009110  MTX3; metaxin-3 [KO:K17776]
104009262  JUN; transcription factor AP-1 isoform X1 [KO:K04448]
104009559  SRC; proto-oncogene tyrosine-protein kinase Src [KO:K05704] [EC:2.7.10.2]
104009696  [KO:K08268]
104009754  PHB2; prohibitin-2 [KO:K17081]
104009874  RAB5C; ras-related protein Rab-5C isoform X1 [KO:K07889]
104009879  BECN1; beclin-1 [KO:K08334]
104009883  NBR1; next to BRCA1 gene 1 protein [KO:K17987]
104010058  ATG9A; autophagy-related protein 9A [KO:K17907]
104010140  HIF1A; hypoxia-inducible factor 1-alpha [KO:K08268]
104010290  MTX2; metaxin-2 [KO:K17776]
104010364  NRAS; GTPase NRas [KO:K07828]
104010969  RRAS2; ras-related protein R-Ras2 [KO:K07830]
104011019  TBK1; serine/threonine-protein kinase TBK1 [KO:K05410] [EC:2.7.11.10]
104011039  TBC1D15; LOW QUALITY PROTEIN: TBC1 domain family member 15 [KO:K20168]
104011146  FOXO3; forkhead box protein O3 [KO:K09408]
104011210  PINK1; serine/threonine-protein kinase PINK1, mitochondrial [KO:K05688] [EC:2.7.11.1]
104011214  MUL1; mitochondrial ubiquitin ligase activator of NFKB 1 [KO:K15688] [EC:2.3.2.27]
104011275  SIAH1; E3 ubiquitin-protein ligase SIAH1 [KO:K04506] [EC:2.3.2.27]
104011319  MAP1LC3C; microtubule-associated proteins 1A/1B light chain 3C [KO:K10435]
104011526  USP15; ubiquitin carboxyl-terminal hydrolase 15 [KO:K21343] [EC:3.4.19.12]
104011932  CSNK2A1; casein kinase II subunit alpha [KO:K03097] [EC:2.7.11.1]
104012232  CALCOCO2; calcium-binding and coiled-coil domain-containing protein 2 [KO:K21348]
104012588  TOMM40L; mitochondrial import receptor subunit TOM40B [KO:K11518]
104012675  SAMM50; sorting and assembly machinery component 50 homolog [KO:K07277]
104012697  KRAS; GTPase KRas isoform X1 [KO:K07827]
104012925  MARCH5; E3 ubiquitin-protein ligase MARCH5 [KO:K10660] [EC:2.3.2.27]
104013122  RAB7B; ras-related protein Rab-7b [KO:K07898]
104013156  TFEB; transcription factor EB isoform X1 [KO:K15590]
104013238  MAPK8; mitogen-activated protein kinase 8 isoform X1 [KO:K04440] [EC:2.7.11.24]
104013239  GABARAPL1; gamma-aminobutyric acid receptor-associated protein-like 1 [KO:K08341]
104013693  UBA52; ubiquitin-60S ribosomal protein L40 [KO:K02927]
104013728  FKBP8; peptidyl-prolyl cis-trans isomerase FKBP8 [KO:K09574] [EC:5.2.1.8]
104013822  VCP; transitional endoplasmic reticulum ATPase [KO:K13525]
104013865  BNIP3; BCL2/adenovirus E1B 19 kDa protein-interacting protein 3 [KO:K15464]
104013901  RAB5A; ras-related protein Rab-5A isoform X1 [KO:K07887]
104013916  TAX1BP1; tax1-binding protein 1 isoform X1 [KO:K21347]
104014157  TOMM70A; mitochondrial import receptor subunit TOM70 [KO:K17768]
104014189  SQSTM1; sequestosome-1 isoform X1 [KO:K14381]
104014308  RHOT1; mitochondrial Rho GTPase 1 isoform X1 [KO:K07870] [EC:3.6.5.-]
104014365  SMURF2; E3 ubiquitin-protein ligase SMURF2 [KO:K04678] [EC:2.3.2.26]
104014619  OPTN; optineurin [KO:K19946]
104015062  CCZ1; vacuolar fusion protein CCZ1 homolog [KO:K27045]
104015226  SMURF1; E3 ubiquitin-protein ligase SMURF1 [KO:K04678] [EC:2.3.2.26]
104015629  [KO:K15688] [EC:2.3.2.27]
104015679  OPA1; dynamin-like 120 kDa protein, mitochondrial [KO:K17079] [EC:3.6.5.5]
104016024  RABGEF1; rab5 GDP/GTP exchange factor isoform X1 [KO:K20131]
104016377  AMFR; E3 ubiquitin-protein ligase AMFR [KO:K10636] [EC:2.3.2.36]
104016705  ARIH1; E3 ubiquitin-protein ligase ARIH1 [KO:K11968] [EC:2.3.2.31]
104016929  MITF; microphthalmia-associated transcription factor isoform X1 [KO:K09455]
104017116  USP8; ubiquitin carboxyl-terminal hydrolase 8 isoform X1 [KO:K11839] [EC:3.4.19.12]
104017304  HRAS; GTPase HRas [KO:K02833]
104017457  CSNK2A2; casein kinase II subunit alpha' [KO:K03097] [EC:2.7.11.1]
104017466  RAB5B; ras-related protein Rab-5B isoform X1 [KO:K07888]
104017530  SP1; transcription factor Sp1 [KO:K04684]
104018321  BCL2L1; bcl-2-like protein 1 isoform X1 [KO:K04570]
104018369  TRAF2; LOW QUALITY PROTEIN: TNF receptor-associated factor 2 [KO:K03173] [EC:2.3.2.27]
104018409  [KO:K10435]
104018425  PARK2; E3 ubiquitin-protein ligase parkin [KO:K04556] [EC:2.3.2.31]
104018444  MAPK9; mitogen-activated protein kinase 9 isoform X1 [KO:K04440] [EC:2.7.11.24]
104018561  EIF2AK3; eukaryotic translation initiation factor 2-alpha kinase 3 [KO:K08860] [EC:2.7.11.1]
104018970  MRAS; ras-related protein M-Ras [KO:K07831]
104019518  BNIP3L; BCL2/adenovirus E1B 19 kDa protein-interacting protein 3-like [KO:K15465]
104019593  MFN1; mitofusin-1 [KO:K21356] [EC:3.6.5.-]
104019815  MAPK10; mitogen-activated protein kinase 10 isoform X1 [KO:K04440] [EC:2.7.11.24]
104019879  TOMM20; mitochondrial import receptor subunit TOM20 homolog [KO:K17770]
104019896  ULK1; serine/threonine-protein kinase ULK1 [KO:K21357] [EC:2.7.11.1]
104019972  MAP1LC3A; microtubule-associated proteins 1A/1B light chain 3A [KO:K10435]
104019977  E2F1; transcription factor E2F1 [KO:K17454]
104020204  BCL2L13; bcl-2-like protein 13 [KO:K15485]
104020299  EIF2S1; eukaryotic translation initiation factor 2 subunit 1 [KO:K03237]
104020375  AMBRA1; activating molecule in BECN1-regulated autophagy protein 1 [KO:K17985]
104020503  MTX1; metaxin-1 [KO:K17776]
104020534  USP30; ubiquitin carboxyl-terminal hydrolase 30 [KO:K11851] [EC:3.4.19.12]
104020869  FUNDC1; FUN14 domain-containing protein 1 [KO:K17986]
104021077  PGAM5; serine/threonine-protein phosphatase PGAM5, mitochondrial [KO:K15637] [EC:3.1.3.16]
104021625  ATF4; cyclic AMP-dependent transcription factor ATF-4 [KO:K04374]
104022412  RPS27A; ubiquitin-40S ribosomal protein S27a [KO:K02977]
104022657  RAB7A; ras-related protein Rab-7a isoform X1 [KO:K07897]
104022879  MON1A; vacuolar fusion protein MON1 homolog A isoform X1 [KO:K20195]
104023397  [KO:K03097] [EC:2.7.11.1]
104023476  RHOT2; mitochondrial Rho GTPase 2 [KO:K07871] [EC:3.6.5.-]
104023652  MAP1LC3B; microtubule-associated proteins 1A/1B light chain 3B [KO:K10435]
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
nni04140  Autophagy - animal
nni04210  Apoptosis
KO pathway
ko04137   

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