KEGG   PATHWAY: msam04210
Entry
msam04210                   Pathway                                
Name
Apoptosis - Micropterus salmoides (largemouth bass)
Description
Apoptosis is a genetically programmed process for the elimination of damaged or redundant cells by activation of caspases (aspartate-specific cysteine proteases). The onset of apoptosis is controlled by numerous interrelating processes. The 'extrinsic' pathway involves stimulation of members of the tumor necrosis factor (TNF) receptor subfamily, such as TNFRI, CD95/Fas or TRAILR (death receptors), located at the cell surface, by their specific ligands, such as TNF-alpha, FasL or TRAIL, respectively. The 'intrinsic' pathway is activated mainly by non-receptor stimuli, such as DNA damage, ER stress, metabolic stress, UV radiation or growth-factor deprivation. The central event in the 'intrinsic' pathway is the mitochondrial outer membrane permeabilization (MOMP), which leads to the release of cytochrome c. These two pathways converge at the level of effector caspases, such as caspase-3 and caspase-7. The third major pathway is initiated by the constituents of cytotoxic granules (e.g. Perforin and Granzyme B) that are released by CTLs (cytotoxic T-cells) and NK (natural killer) cells. Granzyme B, similarly to the caspases, cleaves its substrates after aspartic acid residues, suggesting that this protease has the ability to activate members of the caspase family directly. It is the balance between the pro-apoptotic and anti-apoptotic signals that eventually determines whether cells will undergo apoptosis, survive or proliferate. TNF family of ligands activates anti-apoptotic or cell-survival signals as well as apoptotic signals. NGF and Interleukin-3 promotes the survival, proliferation and differentiation of neurons or hematopoietic cells, respectively. Withdrawal of these growth factors leads to cell death, as described above.
Class
Cellular Processes; Cell growth and death
Pathway map
msam04210  Apoptosis
msam04210

Other DBs
GO: 0006915
Organism
Micropterus salmoides (largemouth bass) [GN:msam]
Gene
119881916  [KO:K05692]
119882210  [KO:K01368] [EC:3.4.22.27]
119882211  [KO:K01371] [EC:3.4.22.38]
119882548  atm; serine-protein kinase ATM isoform X1 [KO:K04728] [EC:2.7.11.1]
119882692  akt2; RAC-beta serine/threonine-protein kinase isoform X1 [KO:K04456] [EC:2.7.11.1]
119882707  ctsc; dipeptidyl peptidase 1 [KO:K01275] [EC:3.4.14.1]
119883067  [KO:K10522]
119883088  pik3cb; phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit beta isoform [KO:K00922] [EC:2.7.1.153]
119883334  [KO:K10522]
119883415  sept4b; septin 4b isoform X1 [KO:K16943]
119884738  birc2; baculoviral IAP repeat-containing protein 2 [KO:K16060]
119885147  actb2; actin, cytoplasmic 2 [KO:K05692]
119885408  atf4b; activating transcription factor 4b [KO:K04374]
119885426  napsa; napsin-A [KO:K01379] [EC:3.4.23.5]
119885508  csf2rb; cytokine receptor common subunit beta [KO:K04738]
119885618  [KO:K04958]
119885633  [KO:K04570]
119885934  ctsz; cathepsin Z [KO:K08568] [EC:3.4.18.1]
119886325  mapk3; mitogen-activated protein kinase 3 [KO:K04371] [EC:2.7.11.24]
119886455  [KO:K04958]
119886478  parp3; protein mono-ADP-ribosyltransferase PARP3 [KO:K10798] [EC:2.4.2.-]
119886483  [KO:K04958]
119886641  ddit3; DNA damage-inducible transcript 3 protein [KO:K04452]
119886647  [KO:K07827]
119886942  ngfb; nerve growth factor [KO:K02582]
119887883  [KO:K08731]
119888531  cd40lg; CD40 ligand [KO:K04389]
119888553  ctso; cathepsin O isoform X1 [KO:K01374] [EC:3.4.22.42]
119888580  mapk9; mitogen-activated protein kinase 9 isoform X1 [KO:K04440] [EC:2.7.11.24]
119888653  [KO:K02187] [EC:3.4.22.56]
119888922  ctsf; cathepsin F [KO:K01373] [EC:3.4.22.41]
119888973  nfkb1; nuclear factor NF-kappa-B p105 subunit isoform X1 [KO:K02580]
119888990  [KO:K04402]
119889051  [KO:K04725] [EC:2.3.2.27]
119889172  ern1; LOW QUALITY PROTEIN: serine/threonine-protein kinase/endoribonuclease IRE1 [KO:K08852] [EC:2.7.11.1 3.1.26.-]
119890025  tradd; tumor necrosis factor receptor type 1-associated DEATH domain protein [KO:K03171]
119890271  [KO:K01379] [EC:3.4.23.5]
119890351  lmnl3; lamin L3 isoform X1 [KO:K07611]
119890367  fadd; protein FADD [KO:K02373]
119890479  ctsba; cathepsin B [KO:K01363] [EC:3.4.22.1]
119890554  [KO:K01366] [EC:3.4.22.16]
119890589  zgc:153993; apoptosis regulator BAX [KO:K02159]
119890600  [KO:K01379] [EC:3.4.23.5]
119891193  ikbkb; inhibitor of nuclear factor kappa-B kinase subunit beta isoform X1 [KO:K07209] [EC:2.7.11.10]
119891295  mapk1; mitogen-activated protein kinase 1 [KO:K04371] [EC:2.7.11.24]
119891528  [KO:K19901]
119891547  [KO:K02649]
119891579  [KO:K05692]
119891581  [KO:K05692]
119891582  [KO:K05692]
119891769  prf1.5; perforin 1.5 [KO:K07818]
119891830  [KO:K05692]
119891999  map3k14a; mitogen-activated protein kinase kinase kinase 14 [KO:K04466] [EC:2.7.11.25]
119892012  endog; endonuclease G, mitochondrial [KO:K01173]
119892082  baxa; BCL2 associated X, apoptosis regulator a [KO:K02159]
119892126  [KO:K03173] [EC:2.3.2.27]
119892131  hdr; hematopoietic death receptor isoform X1 [KO:K04722]
119892201  gadd45ga; growth arrest and DNA-damage-inducible, gamma a [KO:K04402]
119892265  [KO:K01365] [EC:3.4.22.15]
119892266  [KO:K01365] [EC:3.4.22.15]
119892267  [KO:K01365] [EC:3.4.22.15]
119892268  [KO:K01365] [EC:3.4.22.15]
119892335  [KO:K05692]
119893030  bida; BH3 interacting domain death agonist isoform X1 [KO:K04726]
119893343  kras; GTPase KRas [KO:K07827]
119893420  itpr2; inositol 1,4,5-trisphosphate receptor type 2 [KO:K04959]
119893575  hrasb; HRas proto-oncogene, GTPase b [KO:K02833]
119893612  map2k1; dual specificity mitogen-activated protein kinase kinase 1 isoform X1 [KO:K04368] [EC:2.7.12.2]
119893808  [KO:K07818]
119894208  ctsh; pro-cathepsin H [KO:K01366] [EC:3.4.22.16]
119894324  pidd1; p53-induced death domain-containing protein 1 isoform X1 [KO:K10130]
119894842  [KO:K16943]
119895081  [KO:K04456] [EC:2.7.11.1]
119895094  aifm1; apoptosis-inducing factor 1, mitochondrial isoform X1 [KO:K04727] [EC:1.-.-.-]
119895757  [KO:K01367] [EC:3.4.22.52]
119895781  prf1.3; perforin-1.3 [KO:K07818]
119896303  [KO:K07374]
119896761  [KO:K04396] [EC:3.4.22.59]
119896812  [KO:K04456] [EC:2.7.11.1]
119897014  ctsk; cathepsin K [KO:K01371] [EC:3.4.22.38]
119897015  ctss2.1; cathepsin S, ortholog2, tandem duplicate 1 isoform X1 [KO:K01368] [EC:3.4.22.27]
119897019  mcl1b; induced myeloid leukemia cell differentiation protein Mcl-1b [KO:K02539]
119897108  ntrk1; high affinity nerve growth factor receptor [KO:K03176] [EC:2.7.10.1]
119897136  [KO:K12641]
119897144  [KO:K03156]
119897276  si:ch211-1i11.3; mitogen-activated protein kinase kinase kinase 5 isoform X1 [KO:K04426] [EC:2.7.11.25]
119897443  tnfrsf1a; tumor necrosis factor receptor superfamily member 1A isoform X1 [KO:K03158]
119897458  casp2; caspase-2 isoform X1 [KO:K02186] [EC:3.4.22.55]
119897619  [KO:K02161]
119897632  [KO:K02161]
119898122  akt3b; RAC-gamma serine/threonine-protein kinase [KO:K04456] [EC:2.7.11.1]
119898630  atf4a; cyclic AMP-dependent transcription factor ATF-4 isoform X1 [KO:K04374]
119898709  [KO:K07818]
119898717  [KO:K05692]
119898722  [KO:K05692]
119898754  [KO:K08852] [EC:2.7.11.1 3.1.26.-]
119898808  casp3a; caspase-3a [KO:K02187] [EC:3.4.22.56]
119898886  [KO:K07818]
119898911  [KO:K04396] [EC:3.4.22.59]
119898913  [KO:K04396] [EC:3.4.22.59]
119899714  [KO:K07818]
119899716  [KO:K07818]
119899717  [KO:K07818]
119899718  [KO:K07818]
119899878  [KO:K01367] [EC:3.4.22.52]
119899880  capn2l; calpain 2, (m/II) large subunit, like [KO:K03853] [EC:3.4.22.53]
119899881  capn8; calpain-8 [KO:K03853] [EC:3.4.22.53]
119899882  [KO:K03853] [EC:3.4.22.53]
119900224  pik3r3b; phosphoinositide-3-kinase, regulatory subunit 3b (gamma) isoform X1 [KO:K02649]
119900328  [KO:K07374]
119900335  [KO:K00922] [EC:2.7.1.153]
119900336  [KO:K07374]
119900344  [KO:K07374]
119900503  [KO:K02649]
119900881  map2k2a; LOW QUALITY PROTEIN: dual specificity mitogen-activated protein kinase kinase 2a [KO:K04369] [EC:2.7.12.2]
119900919  [KO:K01353] [EC:3.4.21.79]
119900920  [KO:K01353] [EC:3.4.21.79]
119900921  [KO:K01353] [EC:3.4.21.79]
119901000  faslg; tumor necrosis factor ligand superfamily member 6 [KO:K04389]
119901002  jun; transcription factor AP-1 isoform X1 [KO:K04448]
119901049  cts12; procathepsin L [KO:K01365] [EC:3.4.22.15]
119901218  gadd45ab; growth arrest and DNA-damage-inducible, alpha, b [KO:K04402]
119901306  lmnb2; lamin-B2 [KO:K07611]
119901366  [KO:K01353] [EC:3.4.21.79]
119901781  parp2; poly [ADP-ribose] polymerase 2 isoform X1 [KO:K28005]
119901806  [KO:K08568] [EC:3.4.18.1]
119902043  ripk1l; receptor-interacting serine/threonine-protein kinase 1 isoform X1 [KO:K02861] [EC:2.7.11.1]
119902077  bcl2b; apoptosis regulator Bcl-2 [KO:K02161]
119902234  pik3r2; phosphatidylinositol 3-kinase regulatory subunit beta isoform X1 [KO:K02649]
119902265  gadd45aa; growth arrest and DNA-damage-inducible, alpha, a [KO:K04402]
119902325  [KO:K00922] [EC:2.7.1.153]
119902368  [KO:K02649]
119902398  [KO:K04448]
119902446  [KO:K04398] [EC:3.4.22.61]
119902447  [KO:K04398] [EC:3.4.22.61]
119902448  [KO:K04398] [EC:3.4.22.61]
119902918  map2k2b; dual specificity mitogen-activated protein kinase kinase 2b [KO:K04369] [EC:2.7.12.2]
119903298  [KO:K08669] [EC:3.4.21.108]
119903901  [KO:K01353] [EC:3.4.21.79]
119903977  [KO:K07374]
119903978  [KO:K07374]
119903999  [KO:K04724]
119904122  [KO:K08738]
119904125  casp10; caspase-8 [KO:K04398] [EC:3.4.22.61]
119904524  parp4; protein mono-ADP-ribosyltransferase PARP4 isoform X1 [KO:K10798] [EC:2.4.2.-]
119904788  [KO:K04390]
119905028  [KO:K07374]
119905085  itpr3; inositol 1,4,5-trisphosphate receptor type 3 isoform X1 [KO:K04960]
119905116  [KO:K07374]
119905117  tuba1a; tubulin alpha-1A chain [KO:K07374]
119905118  [KO:K07374]
119905160  [KO:K07374]
119905211  tuba5; tubulin alpha 5 [KO:K07374]
119905315  raf1a; raf-1 proto-oncogene, serine/threonine kinase a isoform X1 [KO:K04366] [EC:2.7.11.1]
119905617  pik3cd; phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit delta isoform [KO:K00922] [EC:2.7.1.153]
119905736  dffa; DNA fragmentation factor subunit alpha [KO:K02310]
119905773  [KO:K07210]
119905809  bcl2l1; bcl-2-like protein 1 [KO:K04570]
119905847  dffb; DNA fragmentation factor subunit beta [KO:K02311] [EC:3.-.-.-]
119905914  [KO:K04399] [EC:3.4.22.62]
119906056  birc5b; baculoviral IAP repeat-containing protein 5b [KO:K08731]
119906156  ngfa; neurotrophin-7 [KO:K02582]
119906595  [KO:K10522]
119906688  tnfa; tumor necrosis factor a (TNF superfamily, member 2) [KO:K03156]
119906692  ctss1; cathepsin S, ortholog 1 isoform X1 [KO:K01368] [EC:3.4.22.27]
119906993  daxx; death domain-associated protein 6 [KO:K02308]
119907959  [KO:K12641]
119908415  [KO:K04379]
119908908  nfkbiaa; nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor, alpha a [KO:K04734]
119909126  [KO:K04379]
119909255  parp1; poly [ADP-ribose] polymerase 1 [KO:K24070]
119909531  eif2s1b; eukaryotic translation initiation factor 2 subunit 1b [KO:K03237]
119909551  map3k5; mitogen-activated protein kinase kinase kinase 5 isoform X1 [KO:K04426] [EC:2.7.11.25]
119909776  fosaa; proto-oncogene c-Fos [KO:K04379]
119909865  [KO:K01367] [EC:3.4.22.52]
119910044  eif2ak3; eukaryotic translation initiation factor 2-alpha kinase 3 [KO:K08860] [EC:2.7.11.1]
119910299  [KO:K01367] [EC:3.4.22.52]
119910300  [KO:K01367] [EC:3.4.22.52]
119910301  [KO:K01367] [EC:3.4.22.52]
119910438  [KO:K04402]
119910551  akt1; RAC-alpha serine/threonine-protein kinase [KO:K04456] [EC:2.7.11.1]
119910732  nfkbiab; nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor, alpha b [KO:K04734]
119910909  [KO:K04721]
119910934  ctsl.1; cathepsin L.1 isoform X1 [KO:K01365] [EC:3.4.22.15]
119911248  [KO:K07818]
119911743  badb; BCL2 associated agonist of cell death b isoform X1 [KO:K02158]
119911844  rela; transcription factor p65 isoform X1 [KO:K04735]
119911875  tp53; cellular tumor antigen p53 [KO:K04451]
119912407  zgc:158659; phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit alpha isoform [KO:K00922] [EC:2.7.1.153]
119912565  [KO:K08738]
119912960  [KO:K04721]
119913377  capn1; calpain-1 catalytic subunit [KO:K01367] [EC:3.4.22.52]
119914041  pik3r1; phosphatidylinositol 3-kinase regulatory subunit alpha isoform X1 [KO:K02649]
119914185  tnfrsfa; tumor necrosis factor receptor superfamily, member a isoform X1 [KO:K04722]
119914228  dab2ipb; DAB2 interacting protein b isoform X1 [KO:K19901]
119914239  ptpn13; tyrosine-protein phosphatase non-receptor type 13 isoform X1 [KO:K02374]
119914511  lmnb1; lamin-B1 [KO:K07611]
119914545  sptan1; spectrin alpha chain, non-erythrocytic 1 isoform X1 [KO:K06114]
119914658  [KO:K03173] [EC:2.3.2.27]
119914703  traf2b; TNF receptor-associated factor 2 [KO:K03173] [EC:2.3.2.27]
119914744  [KO:K04397] [EC:3.4.22.60]
119915031  mapk10; mitogen-activated protein kinase 10 isoform X1 [KO:K04440] [EC:2.7.11.24]
119915034  june; junE proto-oncogene, AP-1 transcription factor subunit [KO:K04448]
119915100  gadd45gb.1; growth arrest and DNA-damage-inducible, gamma b, tandem duplicate 1 [KO:K04402]
119915101  [KO:K04402]
119915377  [KO:K04399] [EC:3.4.22.62]
119915381  [KO:K04399] [EC:3.4.22.62]
119915458  [KO:K04467] [EC:2.7.11.10]
119915538  pdpk1b; 3-phosphoinositide-dependent protein kinase 1 [KO:K06276] [EC:2.7.11.1]
119915573  mapk8b; mitogen-activated protein kinase 8 isoform X1 [KO:K04440] [EC:2.7.11.24]
119915733  [KO:K07374]
119916041  casp7; caspase-7 [KO:K04397] [EC:3.4.22.60]
119916083  birc5a; baculoviral IAP repeat-containing protein 5a [KO:K08731]
119916377  [KO:K04466] [EC:2.7.11.25]
119916983  akt3a; RAC-gamma serine/threonine-protein kinase isoform X1 [KO:K04456] [EC:2.7.11.1]
119917030  mapk8a; mitogen-activated protein kinase 8 isoform X1 [KO:K04440] [EC:2.7.11.24]
119917176  bcl2l11; bcl-2-like protein 11 isoform X1 [KO:K16341]
119917364  [KO:K04467] [EC:2.7.11.10]
119917367  [KO:K04390]
119917655  [KO:K01367] [EC:3.4.22.52]
119917657  [KO:K03853] [EC:3.4.22.53]
119918136  apaf1; apoptotic protease-activating factor 1 isoform X1 [KO:K02084]
119918273  [KO:K07374]
119918688  [KO:K04722]
119919358  [KO:K04397] [EC:3.4.22.60]
119919380  [KO:K07210]
Compound
C00027  Hydrogen peroxide
C00076  Calcium cation
C00319  Sphingosine
C05981  Phosphatidylinositol-3,4,5-trisphosphate
Reference
  Authors
Savitskaya MA, Onishchenko GE
  Title
Mechanisms of Apoptosis.
  Journal
Biochemistry (Mosc) 80:1393-417 (2015)
DOI:10.1134/S0006297915110012
Reference
  Authors
Schleich K, Lavrik IN
  Title
Mathematical modeling of apoptosis.
  Journal
Cell Commun Signal 11:44 (2013)
DOI:10.1186/1478-811X-11-44
Reference
  Authors
Lavrik I, Golks A, Krammer PH
  Title
Death receptor signaling.
  Journal
J Cell Sci 118:265-7 (2005)
DOI:10.1242/jcs.01610
Reference
  Authors
Jin Z, El-Deiry WS
  Title
Overview of cell death signaling pathways.
  Journal
Cancer Biol Ther 4:139-63 (2005)
DOI:10.4161/cbt.4.2.1508
Reference
  Authors
Benn SC, Woolf CJ
  Title
Adult neuron survival strategies--slamming on the brakes.
  Journal
Nat Rev Neurosci 5:686-700 (2004)
DOI:10.1038/nrn1477
Reference
  Authors
Orrenius S, Zhivotovsky B, Nicotera P
  Title
Regulation of cell death: the calcium-apoptosis link.
  Journal
Nat Rev Mol Cell Biol 4:552-65 (2003)
DOI:10.1038/nrm1150
Reference
  Authors
Clarke P, Tyler KL
  Title
Apoptosis in animal models of virus-induced disease.
  Journal
Nat Rev Microbiol 7:144-55 (2009)
DOI:10.1038/nrmicro2071
Reference
  Authors
Wen X, Lin ZQ, Liu B, Wei YQ
  Title
Caspase-mediated programmed cell death pathways as potential therapeutic targets in cancer.
  Journal
Cell Prolif 45:217-24 (2012)
DOI:10.1111/j.1365-2184.2012.00814.x
Reference
  Authors
Shalini S, Dorstyn L, Dawar S, Kumar S
  Title
Old, new and emerging functions of caspases.
  Journal
Cell Death Differ 22:526-39 (2015)
DOI:10.1038/cdd.2014.216
Reference
  Authors
Philchenkov A
  Title
Caspases: potential targets for regulating cell death.
  Journal
J Cell Mol Med 8:432-44 (2004)
DOI:10.1111/j.1582-4934.2004.tb00468.x
Reference
PMID:9894605
  Authors
Stroh C, Schulze-Osthoff K
  Title
Death by a thousand cuts: an ever increasing list of caspase substrates.
  Journal
Cell Death Differ 5:997-1000 (1998)
DOI:10.1038/sj.cdd.4400451
Reference
  Authors
Safa AR
  Title
c-FLIP, a master anti-apoptotic regulator.
  Journal
Exp Oncol 34:176-84 (2012)
Reference
  Authors
Jeong SY, Seol DW
  Title
The role of mitochondria in apoptosis.
  Journal
BMB Rep 41:11-22 (2008)
DOI:10.5483/bmbrep.2008.41.1.011
Reference
  Authors
Parsons MJ, Green DR
  Title
Mitochondria in cell death.
  Journal
Essays Biochem 47:99-114 (2010)
DOI:10.1042/bse0470099
Reference
  Authors
Strasser A
  Title
The role of BH3-only proteins in the immune system.
  Journal
Nat Rev Immunol 5:189-200 (2005)
DOI:10.1038/nri1568
Reference
  Authors
Schonthal AH
  Title
Endoplasmic reticulum stress: its role in disease and novel prospects for therapy.
  Journal
Scientifica (Cairo) 2012:857516 (2012)
DOI:10.6064/2012/857516
Reference
  Authors
Malhi H, Kaufman RJ
  Title
Endoplasmic reticulum stress in liver disease.
  Journal
J Hepatol 54:795-809 (2011)
DOI:10.1016/j.jhep.2010.11.005
Reference
  Authors
Malhotra JD, Kaufman RJ
  Title
The endoplasmic reticulum and the unfolded protein response.
  Journal
Semin Cell Dev Biol 18:716-31 (2007)
DOI:10.1016/j.semcdb.2007.09.003
Reference
  Authors
Wu J, Kaufman RJ
  Title
From acute ER stress to physiological roles of the Unfolded Protein Response.
  Journal
Cell Death Differ 13:374-84 (2006)
DOI:10.1038/sj.cdd.4401840
Reference
  Authors
Repnik U, Stoka V, Turk V, Turk B
  Title
Lysosomes and lysosomal cathepsins in cell death.
  Journal
Biochim Biophys Acta 1824:22-33 (2012)
DOI:10.1016/j.bbapap.2011.08.016
Reference
  Authors
Cesen MH, Pegan K, Spes A, Turk B
  Title
Lysosomal pathways to cell death and their therapeutic applications.
  Journal
Exp Cell Res 318:1245-51 (2012)
DOI:10.1016/j.yexcr.2012.03.005
Reference
  Authors
Dashzeveg N, Yoshida K
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Related
pathway
msam04010  MAPK signaling pathway
msam04020  Calcium signaling pathway
msam04115  p53 signaling pathway
msam04141  Protein processing in endoplasmic reticulum
KO pathway
ko04210   

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