KEGG   PATHWAY: oda04148
Entry
oda04148                    Pathway                                
Name
Efferocytosis - Oryx dammah (scimitar-horned oryx)
Class
Cellular Processes; Transport and catabolism
Pathway map
oda04148  Efferocytosis
oda04148

Organism
Oryx dammah (scimitar-horned oryx) [GN:oda]
Gene
120865721  CASP3; caspase-3 [KO:K02187] [EC:3.4.22.56]
120873906  CASP7; caspase-7 isoform X1 [KO:K04397] [EC:3.4.22.60]
120876143  caspase-1-like isoform X1 [KO:K01370] [EC:3.4.22.36]
120874796  PANX1; pannexin-1 [KO:K03443]
120876746  P2RY2; P2Y purinoceptor 2 [KO:K04269]
120876747  P2RY6; P2Y purinoceptor 6 [KO:K04272]
120858698  P2RY12; P2Y purinoceptor 12 [KO:K04298]
120872180  SPHK2; sphingosine kinase 2 isoform X1 [KO:K04718] [EC:2.7.1.91]
120866745  SPHK1; sphingosine kinase 1 isoform X1 [KO:K04718] [EC:2.7.1.91]
120856783  S1PR1; sphingosine 1-phosphate receptor 1 [KO:K04288]
120857629  PLA2G6; 85/88 kDa calcium-independent phospholipase A2 isoform X1 [KO:K16343] [EC:3.1.1.4]
120864128  ABCA1; phospholipid-transporting ATPase ABCA1 isoform X1 [KO:K05641]
120875122  GPR132; probable G-protein coupled receptor 132 [KO:K08426]
120851888  ADAM17; disintegrin and metalloproteinase domain-containing protein 17 isoform X1 [KO:K06059] [EC:3.4.24.86]
120853042  ADAM10; disintegrin and metalloproteinase domain-containing protein 10 [KO:K06704] [EC:3.4.24.81]
120873145  CX3CL1; fractalkine isoform X1 [KO:K05508]
120867803  CX3CR1; CX3C chemokine receptor 1 [KO:K04192]
120869072  NFATC2; nuclear factor of activated T-cells, cytoplasmic 2 isoform X1 [KO:K17332]
120880955  NFATC1; nuclear factor of activated T-cells, cytoplasmic 1 isoform X1 [KO:K04446]
120872701  NFATC3; nuclear factor of activated T-cells, cytoplasmic 3 isoform X1 [KO:K17333]
120853486  NFATC4; nuclear factor of activated T-cells, cytoplasmic 4 isoform X1 [KO:K17334]
120852846  HIF1A; hypoxia-inducible factor 1-alpha isoform X1 [KO:K08268]
120855911  ARNT; aryl hydrocarbon receptor nuclear translocator [KO:K09097]
120879106  EPO; erythropoietin [KO:K05437]
120863935  EPOR; erythropoietin receptor [KO:K05079]
120860228  tyrosine-protein kinase JAK2-like isoform X1 [KO:K04447] [EC:2.7.10.2]
120865363  JAK2; tyrosine-protein kinase JAK2 isoform X1 [KO:K04447] [EC:2.7.10.2]
120882996  mitogen-activated protein kinase 1-like [KO:K04371] [EC:2.7.11.24]
120876943  MAPK3; mitogen-activated protein kinase 3 [KO:K04371] [EC:2.7.11.24]
120871418  MAPK1; mitogen-activated protein kinase 1 [KO:K04371] [EC:2.7.11.24]
120869089  CEBPB; CCAAT/enhancer-binding protein beta [KO:K10048]
120868104  PPARG; peroxisome proliferator-activated receptor gamma isoform X1 [KO:K08530]
120852176  RXRA; retinoic acid receptor RXR-alpha [KO:K08524]
120875643  MFGE8; lactadherin [KO:K17253]
120883390  GAS6; growth arrest-specific protein 6 [KO:K05464]
120883509  MERTK; tyrosine-protein kinase Mer isoform X1 [KO:K05117] [EC:2.7.10.1]
120878121  platelet glycoprotein 4-like [KO:K06259]
120878122  LOW QUALITY PROTEIN: platelet glycoprotein 4-like [KO:K06259]
120878123  platelet glycoprotein 4 [KO:K06259]
120853227  THBS1; thrombospondin-1 isoform X1 [KO:K16857]
120852527  MAP2K1; dual specificity mitogen-activated protein kinase kinase 1 isoform X1 [KO:K04368] [EC:2.7.12.2]
120860906  dual specificity mitogen-activated protein kinase kinase 1 isoform X1 [KO:K04368] [EC:2.7.12.2]
120864821  MAP2K2; dual specificity mitogen-activated protein kinase kinase 2 isoform X1 [KO:K04369] [EC:2.7.12.2]
120880449  PTGS2; prostaglandin G/H synthase 2 [KO:K11987] [EC:1.14.99.1]
120852556  PTGER2; prostaglandin E2 receptor EP2 subtype [KO:K04259]
120879415  PTGER4; prostaglandin E2 receptor EP4 subtype [KO:K04261]
120851597  DNMT3A; DNA (cytosine-5)-methyltransferase 3A isoform X1 [KO:K17398] [EC:2.1.1.37]
120854564  CREB1; cyclic AMP-responsive element-binding protein 1 isoform X1 [KO:K05870]
120872413  TGFB1; transforming growth factor beta-1 proprotein isoform X1 [KO:K13375]
120876547  ATP2A1; sarcoplasmic/endoplasmic reticulum calcium ATPase 1 isoform X1 [KO:K05853] [EC:7.2.2.10]
120871032  ATP2A2; sarcoplasmic/endoplasmic reticulum calcium ATPase 2 [KO:K05853] [EC:7.2.2.10]
120866166  ATP2A3; sarcoplasmic/endoplasmic reticulum calcium ATPase 3 isoform X1 [KO:K05853] [EC:7.2.2.10]
120877497  CAMK2B; calcium/calmodulin-dependent protein kinase type II subunit beta isoform X1 [KO:K04515] [EC:2.7.11.17]
120861703  CAMK2D; calcium/calmodulin-dependent protein kinase type II subunit delta isoform X1 [KO:K04515] [EC:2.7.11.17]
120863412  CAMK2A; calcium/calmodulin-dependent protein kinase type II subunit alpha isoform X1 [KO:K04515] [EC:2.7.11.17]
120865286  CAMK2G; calcium/calmodulin-dependent protein kinase type II subunit gamma isoform X1 [KO:K04515] [EC:2.7.11.17]
120870210  MAPK13; mitogen-activated protein kinase 13 isoform X1 [KO:K04441] [EC:2.7.11.24]
120870211  MAPK14; mitogen-activated protein kinase 14 isoform X1 [KO:K04441] [EC:2.7.11.24]
120857807  MAPK12; mitogen-activated protein kinase 12 [KO:K04441] [EC:2.7.11.24]
120857808  MAPK11; mitogen-activated protein kinase 11 isoform X1 [KO:K04441] [EC:2.7.11.24]
120879875  MAPKAPK2; MAP kinase-activated protein kinase 2 [KO:K04443] [EC:2.7.11.1]
120865494  ALOX5; polyunsaturated fatty acid 5-lipoxygenase [KO:K00461] [EC:1.13.11.34]
120866092  polyunsaturated fatty acid lipoxygenase ALOX15 [KO:K00460] [EC:1.13.11.33]
120883537  DUSP2; dual specificity protein phosphatase 2 [KO:K04459] [EC:3.1.3.16 3.1.3.48]
120858862  DUSP16; dual specificity protein phosphatase 16 [KO:K04459] [EC:3.1.3.16 3.1.3.48]
120868345  DUSP7; dual specificity protein phosphatase 7 [KO:K04459] [EC:3.1.3.16 3.1.3.48]
120865608  DUSP4; dual specificity protein phosphatase 4 [KO:K04459] [EC:3.1.3.16 3.1.3.48]
120873622  DUSP5; dual specificity protein phosphatase 5 [KO:K04459] [EC:3.1.3.16 3.1.3.48]
120874187  DUSP8; dual specificity protein phosphatase 8 [KO:K04459] [EC:3.1.3.16 3.1.3.48]
120861344  anoctamin-6 isoform X1 [KO:K19500]
120857920  anoctamin-6-like [KO:K19500]
120876822  ANO3; anoctamin-3 [KO:K19498]
120858677  ANO4; anoctamin-4 isoform X1 [KO:K19499]
120874296  ANO5; anoctamin-5 [KO:K19480]
120856626  ANO7; LOW QUALITY PROTEIN: anoctamin-7 [KO:K19501]
120874202  ANO9; anoctamin-9 isoform X1 [KO:K19503]
120863738  BSG; basigin [KO:K06535]
120855137  XKR8; XK-related protein 8 [KO:K26813]
120878659  XKR9; XK-related protein 9 [KO:K26814]
120868752  XKR7; XK-related protein 7 [KO:K26811]
120878583  XKR4; XK-related protein 4 [KO:K26811]
120858179  XKR6; XK-related protein 6 [KO:K26811]
120882942  phospholipid-transporting ATPase IB [KO:K14802] [EC:7.6.2.1]
120883220  phospholipid-transporting ATPase IB-like [KO:K14802] [EC:7.6.2.1]
120862062  ATP8A1; phospholipid-transporting ATPase IA isoform X1 [KO:K14802] [EC:7.6.2.1]
120881736  ATP11C; phospholipid-transporting ATPase IG isoform X1 [KO:K26934] [EC:7.6.2.1]
120871612  ATP11B; probable phospholipid-transporting ATPase IF isoform X1 [KO:K26934] [EC:7.6.2.1]
120883380  ATP11A; probable phospholipid-transporting ATPase IH isoform X1 [KO:K26934] [EC:7.6.2.1]
120860417  cell cycle control protein 50A [KO:K26935]
120862897  TMEM30A; cell cycle control protein 50A [KO:K26935]
120853135  PROS1; vitamin K-dependent protein S [KO:K03908]
120854008  ITGAV; integrin alpha-V isoform X1 [KO:K06487]
120866975  ITGB3; integrin beta-3 [KO:K06493]
120870547  ITGB5; integrin beta-5 [KO:K06588]
120872373  AXL; tyrosine-protein kinase receptor UFO isoform X1 [KO:K05115] [EC:2.7.10.1]
120853173  TYRO3; tyrosine-protein kinase receptor TYRO3 isoform X1 [KO:K05116] [EC:2.7.10.1]
120878790  ADGRB1; adhesion G protein-coupled receptor B1 isoform X1 [KO:K04596]
120864393  TIMD4; T-cell immunoglobulin and mucin domain-containing protein 4 isoform X1 [KO:K26936]
120860565  hepatitis A virus cellular receptor 1-like [KO:K20413]
120864394  HAVCR1; hepatitis A virus cellular receptor 1 [KO:K20413]
120864392  HAVCR2; hepatitis A virus cellular receptor 2 [KO:K20414]
120864460  hepatitis A virus cellular receptor 2-like [KO:K20414]
120870594  AGER; advanced glycosylation end product-specific receptor isoform X1 [KO:K19722]
120868361  STAB1; stabilin-1 [KO:K19020]
120858653  STAB2; stabilin-2 [KO:K19013]
120878853  PTK2; focal adhesion kinase 1 isoform X1 [KO:K05725] [EC:2.7.10.2]
120872852  BCAR1; breast cancer anti-estrogen resistance protein 1 isoform X1 [KO:K05726]
120871323  CRKL; crk-like protein [KO:K04438]
120866233  CRK; adapter molecule crk isoform X1 [KO:K04438]
120877792  ELMO1; engulfment and cell motility protein 1 isoform X1 [KO:K12366]
120873637  DOCK1; dedicator of cytokinesis protein 1 isoform X1 [KO:K13708]
120856144  RAC1; ras-related C3 botulinum toxin substrate 1 [KO:K04392]
120865673  ADAM9; disintegrin and metalloproteinase domain-containing protein 9 [KO:K06834] [EC:3.4.24.-]
120864041  CALR; calreticulin [KO:K08057]
120855022  C1QB; complement C1q subcomponent subunit B [KO:K03987]
120857480  LRP1; prolow-density lipoprotein receptor-related protein 1 isoform X1 [KO:K04550]
120852532  MEGF11; multiple epidermal growth factor-like domains protein 11 isoform X1 [KO:K24068]
120860911  multiple epidermal growth factor-like domains protein 11 [KO:K24068]
120864712  MEGF10; multiple epidermal growth factor-like domains protein 10 [KO:K24068]
120866227  SCARF1; scavenger receptor class F member 1 [KO:K24318]
120854015  GULP1; PTB domain-containing engulfment adapter protein 1 isoform X1 [KO:K23285]
120856495  RAB17; ras-related protein Rab-17 isoform X1 [KO:K07909]
120880188  RAB5A; ras-related protein Rab-5A isoform X1 [KO:K07887]
120857425  RAB5B; ras-related protein Rab-5B [KO:K07888]
120867130  RAB5C; ras-related protein Rab-5C [KO:K07889]
120851223  TGFBRAP1; transforming growth factor-beta receptor-associated protein 1 [KO:K20177]
120872183  VPS8; vacuolar protein sorting-associated protein 8 homolog isoform X1 [KO:K20178]
120876333  VPS11; vacuolar protein sorting-associated protein 11 homolog [KO:K20179]
120868875  VPS16; vacuolar protein sorting-associated protein 16 homolog [KO:K20180]
120853193  VPS18; vacuolar protein sorting-associated protein 18 homolog [KO:K20181]
120871044  VPS33A; vacuolar protein sorting-associated protein 33A [KO:K20182]
120864289  RAB14; ras-related protein Rab-14 [KO:K07881]
120853165  VPS39; vam6/Vps39-like protein isoform X1 [KO:K20183]
120877267  VPS41; vacuolar protein sorting-associated protein 41 homolog isoform X1 [KO:K20184]
120868064  RAB7A; ras-related protein Rab-7a [KO:K07897]
120862523  LOW QUALITY PROTEIN: ras-related protein Rab-7a-like [KO:K07897]
120879946  RAB7B; ras-related protein Rab-7b [KO:K07898]
120861229  ras-related protein Rab-7b-like [KO:K07898]
120858100  ras-related protein Rab-7b-like [KO:K07898]
120854974  SLC66A1; lysosomal amino acid transporter 1 homolog isoform X1 [KO:K23678]
120852787  ARG2; arginase-2, mitochondrial [KO:K01476] [EC:3.5.3.1]
120863018  ARG1; arginase-1 [KO:K01476] [EC:3.5.3.1]
120851874  ODC1; ornithine decarboxylase [KO:K01581] [EC:4.1.1.17]
120854756  antizyme inhibitor 2-like [KO:K01581] [EC:4.1.1.17]
120873795  CH25H; cholesterol 25-hydroxylase [KO:K10223] [EC:1.14.99.38]
120876948  NR1H3; oxysterols receptor LXR-alpha isoform X1 [KO:K08536]
120871992  NR1H2; oxysterols receptor LXR-beta isoform X1 [KO:K08535]
120874135  CPT1A; carnitine O-palmitoyltransferase 1, liver isoform [KO:K08765] [EC:2.3.1.21]
120857792  CPT1B; carnitine O-palmitoyltransferase 1, muscle isoform isoform X1 [KO:K19523] [EC:2.3.1.21]
120872120  CPT1C; carnitine O-palmitoyltransferase 1, brain isoform isoform X1 [KO:K19524] [EC:2.3.1.21]
120872874  cytochrome b-c1 complex subunit Rieske, mitochondrial [KO:K00411] [EC:7.1.1.8]
120865204  SIRT1; NAD-dependent protein deacetylase sirtuin-1 isoform X1 [KO:K11411] [EC:2.3.1.286]
120855497  PBX1; pre-B-cell leukemia transcription factor 1 isoform X1 [KO:K09355]
120879937  IL10; interleukin-10 [KO:K05443]
120873786  LIPA; lysosomal acid lipase/cholesteryl ester hydrolase [KO:K01052] [EC:3.1.1.13]
120872733  PLA2G15; phospholipase A2 group XV [KO:K06129] [EC:3.1.1.5]
120870224  PPARD; peroxisome proliferator-activated receptor delta isoform X1 [KO:K04504]
120856308  SLC2A1; solute carrier family 2, facilitated glucose transporter member 1 [KO:K07299]
120856069  SLC16A1; monocarboxylate transporter 1 [KO:K08179]
120856071  monocarboxylate transporter 1-like [KO:K08179]
120863053  SGK1; serine/threonine-protein kinase Sgk1 isoform X1 [KO:K13302] [EC:2.7.11.1]
120878556  LOW QUALITY PROTEIN: leukocyte surface antigen CD47-like [KO:K06266]
120852022  CD47; leukocyte surface antigen CD47 isoform X1 [KO:K06266]
120862549  CD24; signal transducer CD24 [KO:K06469]
120866931  PECAM1; platelet endothelial cell adhesion molecule isoform X1 [KO:K06471]
120872064  sialic acid-binding Ig-like lectin 10 [KO:K06749]
120868587  tyrosine-protein phosphatase non-receptor type substrate 1-like [KO:K06551]
120868588  LOW QUALITY PROTEIN: signal-regulatory protein beta-1-like [KO:K06551]
120868862  SIRPA; tyrosine-protein phosphatase non-receptor type substrate 1 isoform X1 [KO:K06551]
120858748  PTPN6; tyrosine-protein phosphatase non-receptor type 6 isoform X1 [KO:K05697] [EC:3.1.3.48]
120871132  PTPN11; tyrosine-protein phosphatase non-receptor type 11 isoform X1 [KO:K07293] [EC:3.1.3.48]
120880615  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
oda00010  Glycolysis / Gluconeogenesis
oda04140  Autophagy - animal
oda04145  Phagosome
KO pathway
ko04148   
LinkDB

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