KEGG   PATHWAY: rphi04148
Entry
rphi04148                   Pathway                                
Name
Efferocytosis - Ruditapes philippinarum (Manila clam)
Class
Cellular Processes; Transport and catabolism
Pathway map
rphi04148  Efferocytosis
rphi04148

Organism
Ruditapes philippinarum (Manila clam) [GN:rphi]
Gene
132720393  uncharacterized protein LOC132720393 [KO:K02187] [EC:3.4.22.56]
132752043  caspase-3-like [KO:K02187] [EC:3.4.22.56]
132752568  caspase-3-like [KO:K02187] [EC:3.4.22.56]
132712765  uncharacterized protein LOC132712765 isoform X1 [KO:K02187] [EC:3.4.22.56]
132712767  uncharacterized protein LOC132712767 isoform X1 [KO:K02187] [EC:3.4.22.56]
132744926  caspase-3-like [KO:K02187] [EC:3.4.22.56]
132719291  caspase-3-like [KO:K02187] [EC:3.4.22.56]
132736179  caspase-7-like [KO:K04397] [EC:3.4.22.60]
132736180  caspase-3-like [KO:K04397] [EC:3.4.22.60]
132750515  caspase-7-like [KO:K04397] [EC:3.4.22.60]
132750516  caspase-3-like [KO:K04397] [EC:3.4.22.60]
132737182  caspase-3-like [KO:K04397] [EC:3.4.22.60]
132712766  uncharacterized protein LOC132712766 [KO:K04397] [EC:3.4.22.60]
132742252  caspase-7-like [KO:K04397] [EC:3.4.22.60]
132731484  caspase-3-like [KO:K04397] [EC:3.4.22.60]
132746359  caspase-3-like [KO:K04397] [EC:3.4.22.60]
132747297  uncharacterized protein LOC132747297 [KO:K04397] [EC:3.4.22.60]
132731289  sphingosine kinase 2-like isoform X1 [KO:K04718] [EC:2.7.1.91]
132735969  85/88 kDa calcium-independent phospholipase A2-like isoform X1 [KO:K16343] [EC:3.1.1.4]
132720177  phospholipid-transporting ATPase ABCA1-like [KO:K05641]
132721796  disintegrin and metalloproteinase domain-containing protein 17-like [KO:K06059] [EC:3.4.24.86]
132721819  ADAM 17-like protease [KO:K06059] [EC:3.4.24.86]
132735627  disintegrin and metalloproteinase domain-containing protein 10-like [KO:K06704] [EC:3.4.24.81]
132713553  disintegrin and metalloproteinase domain-containing protein 10-like [KO:K06704] [EC:3.4.24.81]
132714667  disintegrin and metalloproteinase domain-containing protein 10-like [KO:K06704] [EC:3.4.24.81]
132744168  disintegrin and metalloproteinase domain-containing protein 10-like isoform X1 [KO:K06704] [EC:3.4.24.81]
132716161  disintegrin and metalloproteinase domain-containing protein 10-like [KO:K06704] [EC:3.4.24.81]
132731502  disintegrin and metalloproteinase domain-containing protein 10-like [KO:K06704] [EC:3.4.24.81]
132731503  disintegrin and metalloproteinase domain-containing protein 10-like [KO:K06704] [EC:3.4.24.81]
132732396  disintegrin and metalloproteinase domain-containing protein 10-like isoform X1 [KO:K06704] [EC:3.4.24.81]
132732397  disintegrin and metalloproteinase domain-containing protein 10-like isoform X1 [KO:K06704] [EC:3.4.24.81]
132713894  LOW QUALITY PROTEIN: hypoxia-inducible factor 1-alpha-like [KO:K08268]
132750712  aryl hydrocarbon receptor nuclear translocator homolog [KO:K09097]
132732172  mitogen-activated protein kinase 1-like [KO:K04371] [EC:2.7.11.24]
132725050  nuclear receptor subfamily 1 group D member 1-like [KO:K08530]
132713580  retinoic acid receptor alpha-like [KO:K08530]
132726881  retinoic acid receptor RXR-like isoform X1 [KO:K08524]
132715987  lactadherin-like isoform X1 [KO:K17253]
132732543  lactadherin-like [KO:K17253]
132739841  lysosome membrane protein 2-like [KO:K06259]
132749167  dual specificity mitogen-activated protein kinase kinase 1-like [KO:K04368] [EC:2.7.12.2]
132724823  dual specificity mitogen-activated protein kinase kinase 1-like isoform X1 [KO:K04368] [EC:2.7.12.2]
132735294  prostaglandin G/H synthase 2-like [KO:K11987] [EC:1.14.99.1]
132737340  prostaglandin G/H synthase 2-like [KO:K11987] [EC:1.14.99.1]
132719719  prostaglandin E2 receptor EP2 subtype-like [KO:K04261]
132749019  prostaglandin E2 receptor EP4 subtype-like [KO:K04261]
132754549  prostaglandin E2 receptor EP4 subtype-like [KO:K04261]
132742403  prostaglandin E2 receptor EP3 subtype-like [KO:K04261]
132742405  prostaglandin E2 receptor EP4 subtype-like [KO:K04261]
132742408  prostaglandin E2 receptor EP3 subtype-like [KO:K04261]
132744104  prostaglandin E2 receptor EP4 subtype-like isoform X1 [KO:K04261]
132744778  prostaglandin E2 receptor EP4 subtype-like [KO:K04261]
132749997  DNA (cytosine-5)-methyltransferase 3A-like isoform X1 [KO:K17398] [EC:2.1.1.37]
132729246  cAMP-responsive element modulator-like isoform X1 [KO:K05870]
132739591  LOW QUALITY PROTEIN: calcium-transporting ATPase sarcoplasmic/endoplasmic reticulum type-like [KO:K05853] [EC:7.2.2.10]
132733704  calcium/calmodulin-dependent protein kinase type II subunit delta-like isoform X1 [KO:K04515] [EC:2.7.11.17]
132749566  mitogen-activated protein kinase 14-like [KO:K04441] [EC:2.7.11.24]
132736891  mitogen-activated protein kinase 14-like isoform X1 [KO:K04441] [EC:2.7.11.24]
132742712  MAP kinase-activated protein kinase 2-like [KO:K04443] [EC:2.7.11.1]
132736951  polyunsaturated fatty acid 5-lipoxygenase-like isoform X1 [KO:K00461] [EC:1.13.11.34]
132725606  allene oxide synthase-lipoxygenase protein-like [KO:K00461] [EC:1.13.11.34]
132754139  allene oxide synthase-lipoxygenase protein-like [KO:K00461] [EC:1.13.11.34]
132757137  polyunsaturated fatty acid lipoxygenase ALOX15B-like [KO:K00461] [EC:1.13.11.34]
132759084  allene oxide synthase-lipoxygenase protein-like [KO:K00461] [EC:1.13.11.34]
132737183  dual specificity protein phosphatase 4-like [KO:K04459] [EC:3.1.3.16 3.1.3.48]
132724129  dual specificity protein phosphatase 4-like [KO:K04459] [EC:3.1.3.16 3.1.3.48]
132716085  dual specificity protein phosphatase 7-like [KO:K04459] [EC:3.1.3.16 3.1.3.48]
132750885  anoctamin-4-like isoform X1 [KO:K19480]
132748366  LOW QUALITY PROTEIN: anoctamin-7-like [KO:K19501]
132728138  anoctamin-7-like [KO:K19501]
132731799  neuroplastin-like [KO:K06535]
132747636  uncharacterized protein LOC132747636 [KO:K26811]
132713195  XK-related protein 4-like [KO:K26811]
132743605  probable phospholipid-transporting ATPase IA [KO:K14802] [EC:7.6.2.1]
132739707  phospholipid-transporting ATPase IF-like isoform X1 [KO:K26934] [EC:7.6.2.1]
132717017  cell cycle control protein 50A-like isoform X1 [KO:K26935]
132747047  cell cycle control protein 50A-like [KO:K26935]
132713405  focal adhesion kinase 1-like isoform X1 [KO:K05725] [EC:2.7.10.2]
132759983  LOW QUALITY PROTEIN: breast cancer anti-estrogen resistance protein 1-like [KO:K05726]
132734566  adapter molecule Crk-like [KO:K04438]
132734567  adapter molecule Crk-like [KO:K04438]
132724159  adapter molecule Crk-like [KO:K04438]
132746430  engulfment and cell motility protein 2-like isoform X1 [KO:K12366]
132741417  dedicator of cytokinesis protein 1-like isoform X1 [KO:K13708]
132719801  cdc42 homolog [KO:K04392]
132722141  ras-related C3 botulinum toxin substrate 1 [KO:K04392]
132755960  ras-related C3 botulinum toxin substrate 2-like [KO:K04392]
132732424  rho-related GTP-binding protein RhoA-B-like [KO:K04392]
132757808  calreticulin-like [KO:K08057]
132748333  complement C1q-like protein 3 [KO:K03986]
132714705  complement C1q tumor necrosis factor-related protein 3-like [KO:K03987]
132745710  complement C1q tumor necrosis factor-related protein 3-like [KO:K03987]
132745464  low-density lipoprotein receptor-related protein 1-like isoform X1 [KO:K04550]
132720727  multiple epidermal growth factor-like domains protein 10 isoform X1 [KO:K24068]
132748702  multiple epidermal growth factor-like domains protein 11 [KO:K24068]
132749562  uncharacterized protein LOC132749562 [KO:K24068]
132713188  multiple epidermal growth factor-like domains protein 10 [KO:K24068]
132742566  multiple epidermal growth factor-like domains protein 10 isoform X1 [KO:K24068]
132743313  multiple epidermal growth factor-like domains protein 6 [KO:K24068]
132757280  multiple epidermal growth factor-like domains protein 10 [KO:K24068]
132716179  multiple epidermal growth factor-like domains protein 10 [KO:K24068]
132731730  multiple epidermal growth factor-like domains protein 6 [KO:K24068]
132719952  multiple epidermal growth factor-like domains protein 10 [KO:K24318]
132713544  PTB domain-containing adapter protein ced-6-like [KO:K23285]
132724037  ras-related protein Rab-5C-like isoform X1 [KO:K07889]
132715541  ras-related protein Rab-5C-like [KO:K07889]
132756112  transforming growth factor-beta receptor-associated protein 1-like [KO:K20177]
132742392  vacuolar protein sorting-associated protein 8 homolog [KO:K20178]
132714358  vacuolar protein sorting-associated protein 11 homolog [KO:K20179]
132724957  vacuolar protein sorting-associated protein 16 homolog [KO:K20180]
132756980  vacuolar protein sorting-associated protein 18 homolog isoform X1 [KO:K20181]
132718789  vacuolar protein sorting-associated protein 33A-like isoform X1 [KO:K20182]
132723485  ras-related protein Rab-14 [KO:K07881]
132739438  vam6/Vps39-like protein [KO:K20183]
132739439  vam6/Vps39-like protein isoform X1 [KO:K20183]
132715829  vacuolar protein sorting-associated protein 41 homolog isoform X1 [KO:K20184]
132752075  ras-related protein Rab-7a [KO:K07897]
132740604  lysosomal amino acid transporter 1 homolog [KO:K23678]
132719732  arginase-1-like [KO:K01476] [EC:3.5.3.1]
132719644  ornithine decarboxylase 1-like [KO:K01581] [EC:4.1.1.17]
132740673  ornithine decarboxylase-like [KO:K01581] [EC:4.1.1.17]
132740682  antizyme inhibitor 2-like isoform X1 [KO:K01581] [EC:4.1.1.17]
132755592  LOW QUALITY PROTEIN: ornithine decarboxylase-like [KO:K01581] [EC:4.1.1.17]
132755595  ornithine decarboxylase 1-like [KO:K01581] [EC:4.1.1.17]
132755597  ornithine decarboxylase 1-like [KO:K01581] [EC:4.1.1.17]
132736528  cholesterol 25-hydroxylase-like protein 1, member 2 [KO:K10223] [EC:1.14.99.38]
132757366  nuclear hormone receptor HR96-like isoform X1 [KO:K08536]
132756467  ecdysone receptor-like isoform X1 [KO:K08535]
132725464  carnitine O-palmitoyltransferase 1, liver isoform-like [KO:K08765] [EC:2.3.1.21]
132712872  carnitine O-palmitoyltransferase 1, muscle isoform-like [KO:K08765] [EC:2.3.1.21]
132746934  carnitine O-palmitoyltransferase 1, liver isoform-like [KO:K08765] [EC:2.3.1.21]
132713523  cytochrome b-c1 complex subunit Rieske, mitochondrial-like [KO:K00411] [EC:7.1.1.8]
132745336  cytochrome b-c1 complex subunit Rieske, mitochondrial-like [KO:K00411] [EC:7.1.1.8]
132746723  pre-B-cell leukemia transcription factor 1-like isoform X1 [KO:K09355]
132731261  lysosomal acid lipase/cholesteryl ester hydrolase-like [KO:K01052] [EC:3.1.1.13]
132713483  phospholipase A2 group XV-like [KO:K06129] [EC:3.1.1.5]
132760575  phospholipase A2 group XV-like isoform X1 [KO:K06129] [EC:3.1.1.5]
132739217  retinoic acid receptor alpha-like [KO:K04504]
132724888  solute carrier family 2, facilitated glucose transporter member 1-like [KO:K07299]
132753730  glucose transporter type 1-like [KO:K07299]
132722461  monocarboxylate transporter 14-like [KO:K08179]
132723728  monocarboxylate transporter 2-like [KO:K08179]
132716619  tyrosine-protein phosphatase non-receptor type 11-like isoform X1 [KO:K07293] [EC:3.1.3.48]
Compound
C00002  ATP
C00003  NAD+
C00019  S-Adenosyl-L-methionine
C00031  D-Glucose
C00062  L-Arginine
C00073  L-Methionine
C00075  UTP
C00077  L-Ornithine
C00134  Putrescine
C00162  Fatty acid
C00186  (S)-Lactate
C00187  Cholesterol
C00584  Prostaglandin E2
C02530  Cholesterol ester
C02737  Phosphatidylserine
C04230  1-Acyl-sn-glycero-3-phosphocholine
C06124  Sphingosine 1-phosphate
C06314  Lipoxin A4
C15519  25-Hydroxycholesterol
C15610  Cholest-5-ene-3beta,26-diol
C18178  Resolvin D1
Reference
PMID:31822793
  Authors
Doran AC, Yurdagul A Jr, Tabas I
  Title
Efferocytosis in health and disease.
  Journal
Nat Rev Immunol 20:254-267 (2020)
DOI:10.1038/s41577-019-0240-6
Reference
PMID:36028471
  Authors
Zhang J, Ding W, Zhao M, Liu J, Xu Y, Wan J, Wang M
  Title
Mechanisms of efferocytosis in determining inflammation resolution: Therapeutic potential and the association with cardiovascular disease.
  Journal
Br J Pharmacol 179:5151-5171 (2022)
DOI:10.1111/bph.15939
Reference
PMID:30165442
  Authors
Kawano M, Nagata S
  Title
Efferocytosis and autoimmune disease.
  Journal
Int Immunol 30:551-558 (2018)
DOI:10.1093/intimm/dxy055
Reference
PMID:35650427
  Authors
Mehrotra P, Ravichandran KS
  Title
Drugging the efferocytosis process: concepts and opportunities.
  Journal
Nat Rev Drug Discov 21:601-620 (2022)
DOI:10.1038/s41573-022-00470-y
Reference
PMID:28496201
  Authors
Park SY, Kim IS
  Title
Engulfment signals and the phagocytic machinery for apoptotic cell clearance.
  Journal
Exp Mol Med 49:e331 (2017)
DOI:10.1038/emm.2017.52
Reference
PMID:28137963
  Authors
Kojima Y, Weissman IL, Leeper NJ
  Title
The Role of Efferocytosis in Atherosclerosis.
  Journal
Circulation 135:476-489 (2017)
DOI:10.1161/CIRCULATIONAHA.116.025684
Related
pathway
rphi00010  Glycolysis / Gluconeogenesis
rphi04140  Autophagy - animal
rphi04145  Phagosome
KO pathway
ko04148   
LinkDB

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