KEGG   PATHWAY: oro04145
Entry
oro04145                    Pathway                                
Name
Phagosome - Odobenus rosmarus divergens (Pacific walrus)
Description
Phagocytosis is the process of taking in relatively large particles by a cell, and is a central mechanism in the tissue remodeling, inflammation, and defense against infectious agents. A phagosome is formed when the specific receptors on the phagocyte surface recognize ligands on the particle surface. After formation, nascent phagosomes progressively acquire digestive characteristics. This maturation of phagosomes involves regulated interaction with the other membrane organelles, including recycling endosomes, late endosomes and lysosomes. The fusion of phagosomes and lysosomes releases toxic products that kill most bacteria and degrade them into fragments. However, some bacteria have strategies to escape the bactericidal mechanisms associated with phagocytosis and survive within host phagocytes.
Class
Cellular Processes; Transport and catabolism
Pathway map
oro04145  Phagosome
oro04145

Other DBs
GO: 0045335
Organism
Odobenus rosmarus divergens (Pacific walrus) [GN:oro]
Gene
101372901  VAMP3; vesicle-associated membrane protein 3 [KO:K13505]
101364951  STX12; syntaxin-12 [KO:K13813]
101372868  STX7; syntaxin-7 [KO:K08488]
101375328  ACTB; actin, cytoplasmic 1 isoform X2 [KO:K05692]
101381916  CORO1A; coronin-1A [KO:K13882]
101378823  STX18; syntaxin-18 [KO:K08492]
101377185  SEC22B; vesicle-trafficking protein SEC22b [KO:K08517]
101382309  HLA class I histocompatibility antigen, B-41 alpha chain-like [KO:K06751]
101372021  HLA class I histocompatibility antigen, A-36 alpha chain-like [KO:K06751]
101384872  class I histocompatibility antigen, Gogo-C*0201 alpha chain-like [KO:K06751]
101372409  LOW QUALITY PROTEIN: HLA class II histocompatibility antigen, DP alpha 1 chain [KO:K06752]
101368848  LOW QUALITY PROTEIN: HLA class II histocompatibility antigen, DP beta 1 chain [KO:K06752]
101367969  HLA class II histocompatibility antigen, DO alpha chain [KO:K06752]
101370206  SLA class II histocompatibility antigen, DQ haplotype D alpha chain-like [KO:K06752]
101370503  HLA class II histocompatibility antigen, DQ beta 1 chain-like isoform X1 [KO:K06752]
101370728  DLA class II histocompatibility antigen, DR-1 beta chain-like [KO:K06752]
101371503  HLA class II histocompatibility antigen, DM beta chain [KO:K06752]
101371809  HLA class II histocompatibility antigen, DO beta chain [KO:K06752]
101372107  HLA class II histocompatibility antigen, DM alpha chain [KO:K06752]
101379071  HLA class II histocompatibility antigen, DR alpha chain [KO:K06752]
101379947  H-2 class II histocompatibility antigen, E-S beta chain-like [KO:K06752]
101380246  DLA class II histocompatibility antigen, DR-1 beta chain-like [KO:K06752]
101380534  HLA class II histocompatibility antigen, DR alpha chain-like [KO:K06752]
101370301  RAB5A; ras-related protein Rab-5A isoform X1 [KO:K07887]
101383953  RAB5B; ras-related protein Rab-5B isoform X1 [KO:K07888]
101371029  RAB5C; ras-related protein Rab-5C isoform X1 [KO:K07889]
101375167  EEA1; early endosome antigen 1 [KO:K12478]
101365381  PIK3C3; phosphatidylinositol 3-kinase catalytic subunit type 3 isoform X1 [KO:K00914] [EC:2.7.1.137]
101370739  TFRC; transferrin receptor protein 1 [KO:K06503]
101380692  HGS; hepatocyte growth factor-regulated tyrosine kinase substrate [KO:K12182]
101365768  ATP6V1A; V-type proton ATPase catalytic subunit A [KO:K02145] [EC:7.1.2.2]
101379692  ATP6V1B2; V-type proton ATPase subunit B, brain isoform [KO:K02147]
101386479  ATP6V1B1; V-type proton ATPase subunit B, kidney isoform isoform X1 [KO:K02147]
101374595  ATP6V1C2; V-type proton ATPase subunit C 2 isoform X1 [KO:K02148]
101379625  ATP6V1C1; V-type proton ATPase subunit C 1 isoform X1 [KO:K02148]
101363014  ATP6V1D; V-type proton ATPase subunit D [KO:K02149]
101383455  V-type proton ATPase subunit E 1-like isoform X1 [KO:K02150]
101370142  ATP6V1E1; V-type proton ATPase subunit E 1 isoform X1 [KO:K02150]
101363332  ATP6V1E2; V-type proton ATPase subunit E 2 [KO:K02150]
101383372  ATP6V1F; V-type proton ATPase subunit F [KO:K02151]
101384010  V-type proton ATPase subunit G 1-like isoform X1 [KO:K02152]
101366940  ATP6V1G2; V-type proton ATPase subunit G 2 isoform X1 [KO:K02152]
101382997  ATP6V1G3; V-type proton ATPase subunit G 3 [KO:K02152]
101384685  ATP6V1G1; V-type proton ATPase subunit G 1 [KO:K02152]
101375691  ATP6V0E1; V-type proton ATPase subunit e 1 [KO:K02153]
101374243  ATP6V0E2; V-type proton ATPase subunit e 2 [KO:K02153]
101380850  V-type proton ATPase subunit e 1 [KO:K02153]
101382977  ATP6V0A2; V-type proton ATPase 116 kDa subunit a isoform 2 [KO:K02154]
101374534  ATP6V0A1; V-type proton ATPase 116 kDa subunit a isoform 1 isoform X2 [KO:K02154]
101381351  ATP6V0A4; V-type proton ATPase 116 kDa subunit a isoform 4 [KO:K02154]
101376099  TCIRG1; V-type proton ATPase 116 kDa subunit a isoform 3 [KO:K02154]
101363374  ATP6V0D1; V-type proton ATPase subunit d 1 [KO:K02146]
101374455  ATP6V0D2; V-type proton ATPase subunit d 2 [KO:K02146]
101375398  ATP6V1H; V-type proton ATPase subunit H isoform X1 [KO:K02144]
101382467  V-type proton ATPase 16 kDa proteolipid subunit-like [KO:K02155]
101377607  ATP6V0C; V-type proton ATPase 16 kDa proteolipid subunit [KO:K02155]
101365399  ATP6V0B; V-type proton ATPase 21 kDa proteolipid subunit isoform X1 [KO:K03661]
101382296  ATP6AP1; V-type proton ATPase subunit S1 [KO:K03662]
101362590  RAB7A; ras-related protein Rab-7a [KO:K07897]
101364347  RAB7B; ras-related protein Rab-7b [KO:K07898]
101371106  RILP; rab-interacting lysosomal protein [KO:K13883]
101371453  DYNC1H1; cytoplasmic dynein 1 heavy chain 1 [KO:K10413]
101367920  DYNC2H1; cytoplasmic dynein 2 heavy chain 1 isoform X1 [KO:K10414]
101375597  DYNC1I1; cytoplasmic dynein 1 intermediate chain 1 isoform X1 [KO:K10415]
101386704  DYNC1I2; cytoplasmic dynein 1 intermediate chain 2 isoform X2 [KO:K10415]
101375724  DYNC1LI1; cytoplasmic dynein 1 light intermediate chain 1 isoform X1 [KO:K10416]
101373400  DYNC1LI2; cytoplasmic dynein 1 light intermediate chain 2 isoform X1 [KO:K10416]
101367064  tubulin alpha-1A chain isoform X3 [KO:K07374]
101367544  tubulin alpha-1B chain-like isoform X2 [KO:K07374]
101367842  tubulin alpha-1B chain [KO:K07374]
101366680  tubulin alpha-3 chain [KO:K07374]
101367253  tubulin alpha-3 chain-like [KO:K07374]
101372594  TUBA8; tubulin alpha-8 chain isoform X1 [KO:K07374]
101380811  LOW QUALITY PROTEIN: tubulin alpha chain-like [KO:K07374]
101379370  TUBAL3; LOW QUALITY PROTEIN: tubulin alpha chain-like 3 [KO:K07374]
101379814  TUBA4A; tubulin alpha-4A chain [KO:K07374]
101371240  tubulin alpha-8 chain [KO:K07374]
101386812  TUBB2B; tubulin beta-2B chain isoform X1 [KO:K07375]
101362359  tubulin beta-2B chain-like isoform X1 [KO:K07375]
101381892  tubulin beta-3 chain [KO:K07375]
101378226  tubulin beta-7 chain-like isoform X1 [KO:K07375]
101385861  TUBB4A; tubulin beta-4A chain isoform X2 [KO:K07375]
101372661  TUBB4B; tubulin beta-4B chain isoform X2 [KO:K07375]
101380807  tubulin beta-7 chain-like isoform X1 [KO:K07375]
101365832  TUBB; tubulin beta chain isoform X1 [KO:K07375]
101385622  TUBB6; tubulin beta-6 chain isoform X1 [KO:K07375]
101368983  TUBB1; tubulin beta-1 chain [KO:K07375]
101367700  LAMP1; lysosome-associated membrane glycoprotein 1 isoform X1 [KO:K06528]
101377327  LAMP2; lysosome-associated membrane glycoprotein 2 isoform X1 [KO:K06528]
101377889  PIKFYVE; 1-phosphatidylinositol 3-phosphate 5-kinase isoform X1 [KO:K00921] [EC:2.7.1.150]
101373474  M6PR; cation-dependent mannose-6-phosphate receptor [KO:K10089]
101375441  NOS1; nitric oxide synthase, brain [KO:K13240] [EC:1.14.13.39]
101380182  MPO; myeloperoxidase isoform X1 [KO:K10789] [EC:1.11.2.2]
101362126  cathepsin L1 [KO:K01365] [EC:3.4.22.15]
101364724  cathepsin L1-like [KO:K01365] [EC:3.4.22.15]
101382346  cathepsin L1-like [KO:K01365] [EC:3.4.22.15]
101364428  cathepsin L1-like [KO:K01365] [EC:3.4.22.15]
101370623  CTSS; cathepsin S isoform X2 [KO:K01368] [EC:3.4.22.27]
101363735  SEC61A2; protein transport protein Sec61 subunit alpha isoform 2 isoform X1 [KO:K10956]
101365069  SEC61A1; protein transport protein Sec61 subunit alpha isoform 1 [KO:K10956]
101380040  SEC61B; protein transport protein Sec61 subunit beta isoform X1 [KO:K09481]
101381282  protein transport protein Sec61 subunit gamma-like [KO:K07342]
101386272  SEC61G; LOW QUALITY PROTEIN: protein transport protein Sec61 subunit gamma [KO:K07342]
101380501  protein transport protein Sec61 subunit gamma [KO:K07342]
101370146  TAP1; antigen peptide transporter 1 [KO:K05653] [EC:7.4.2.14]
101369846  TAP2; antigen peptide transporter 2 [KO:K05654] [EC:7.4.2.14]
101374398  CALR; calreticulin [KO:K08057]
101379380  CANX; calnexin isoform X1 [KO:K08054]
101381082  high affinity immunoglobulin gamma Fc receptor I [KO:K06498]
101363428  FCGR2B; low affinity immunoglobulin gamma Fc region receptor II-b isoform X3 [KO:K12560]
101363133  low affinity immunoglobulin gamma Fc region receptor III-like isoform X2 [KO:K06463]
101370467  uncharacterized protein LOC101370467 [KO:K06856]
101377329  C1R; complement C1r subcomponent isoform X1 [KO:K01330] [EC:3.4.21.41]
101374774  ITGAM; integrin alpha-M [KO:K06461]
101383612  ITGB2; integrin beta-2 [KO:K06464]
101385252  C3; complement C3 [KO:K03990]
101383109  COLEC11; collectin-11 isoform X1 [KO:K10066]
101385132  COLEC12; collectin-12 [KO:K10062]
101382045  MBL2; LOW QUALITY PROTEIN: mannose-binding protein C [KO:K03991]
101382334  pulmonary surfactant-associated protein A isoform X2 [KO:K10067]
101381754  SFTPD; pulmonary surfactant-associated protein D [KO:K10068]
101368762  ITGAV; integrin alpha-V isoform X1 [KO:K06487]
101375601  ITGA2; integrin alpha-2 [KO:K06481]
101380023  ITGA5; integrin alpha-5 [KO:K06484]
101385291  ITGB1; integrin beta-1 isoform X1 [KO:K05719]
101369957  ITGB3; integrin beta-3 [KO:K06493]
101376952  ITGB5; integrin beta-5 [KO:K06588]
101376329  THBS1; thrombospondin-1 isoform X1 [KO:K16857]
101379820  COMP; cartilage oligomeric matrix protein [KO:K04659]
101367458  THBS3; thrombospondin-3 isoform X1 [KO:K04659]
101379053  THBS4; thrombospondin-4 isoform X1 [KO:K04659]
101381226  THBS2; thrombospondin-2 [KO:K04659]
101363280  TLR2; toll-like receptor 2 [KO:K10159]
101367407  uncharacterized protein LOC101367407 [KO:K10159]
101367518  TLR6; toll-like receptor 6 [KO:K10169]
101371071  TLR4; toll-like receptor 4 [KO:K10160]
101376703  CD14; monocyte differentiation antigen CD14 [KO:K04391]
101383150  MRC1; macrophage mannose receptor 1 isoform X2 [KO:K06560]
101378653  MRC2; C-type mannose receptor 2 [KO:K06560]
101366438  PLA2R1; secretory phospholipase A2 receptor [KO:K06560]
101383340  CD209; CD209 antigen isoform X1 [KO:K06563]
101368771  CLEC7A; C-type lectin domain family 7 member A isoform X1 [KO:K10074]
101364546  MSR1; macrophage scavenger receptor types I and II isoform X1 [KO:K06558]
101385697  MARCO; macrophage receptor MARCO [KO:K13884]
101368480  OLR1; oxidized low-density lipoprotein receptor 1 [KO:K08763]
101384308  SCARB1; scavenger receptor class B member 1 isoform X1 [KO:K13885]
101375419  CD36; platelet glycoprotein 4 isoform X1 [KO:K06259]
101364731  cytochrome b-245 light chain [KO:K08009]
101379802  cytochrome b-245 heavy chain [KO:K21421] [EC:1.-.-.-]
101378519  RAC1; ras-related C3 botulinum toxin substrate 1 isoform X1 [KO:K04392]
101366544  LOW QUALITY PROTEIN: ras-related C3 botulinum toxin substrate 1-like [KO:K04392]
101376795  NCF1; neutrophil cytosol factor 1 [KO:K08011]
101385575  NCF2; neutrophil cytosol factor 2 isoform X1 [KO:K08010]
101363941  NCF4; neutrophil cytosol factor 4 [KO:K08012]
Compound
C04549  1-Phosphatidyl-1D-myo-inositol 3-phosphate
Reference
PMID:15894272
  Authors
Stuart LM, Ezekowitz RA
  Title
Phagocytosis: elegant complexity.
  Journal
Immunity 22:539-50 (2005)
DOI:10.1016/j.immuni.2005.05.002
Reference
PMID:10684585
  Authors
Tjelle TE, Lovdal T, Berg T
  Title
Phagosome dynamics and function.
  Journal
Bioessays 22:255-63 (2000)
DOI:10.1002/(SICI)1521-1878(200003)22:3<255::AID-BIES7>3.0.CO;2-R
Reference
PMID:18492791
  Authors
Dupuy AG, Caron E
  Title
Integrin-dependent phagocytosis: spreading from microadhesion to new concepts.
  Journal
J Cell Sci 121:1773-83 (2008)
DOI:10.1242/jcs.018036
Reference
PMID:15036145
  Authors
Brumell JH, Grinstein S
  Title
Salmonella redirects phagosomal maturation.
  Journal
Curr Opin Microbiol 7:78-84 (2004)
DOI:10.1016/j.mib.2003.12.005
Reference
PMID:17245426
  Authors
Huynh KK, Eskelinen EL, Scott CC, Malevanets A, Saftig P, Grinstein S
  Title
LAMP proteins are required for fusion of lysosomes with phagosomes.
  Journal
EMBO J 26:313-24 (2007)
DOI:10.1038/sj.emboj.7601511
Reference
PMID:17637737
  Authors
Luzio JP, Pryor PR, Bright NA
  Title
Lysosomes: fusion and function.
  Journal
Nat Rev Mol Cell Biol 8:622-32 (2007)
DOI:10.1038/nrm2217
Reference
PMID:18513324
  Authors
Sumimoto H
  Title
Structure, regulation and evolution of Nox-family NADPH oxidases that produce reactive oxygen species.
  Journal
FEBS J 275:3249-77 (2008)
DOI:10.1111/j.1742-4658.2008.06488.x
Related
pathway
oro04142  Lysosome
oro04144  Endocytosis
oro04610  Complement and coagulation cascades
oro04612  Antigen processing and presentation
oro04620  Toll-like receptor signaling pathway
oro04666  Fc gamma R-mediated phagocytosis
KO pathway
ko04145   
LinkDB

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