KEGG   PATHWAY: ccw04145
Entry
ccw04145                    Pathway                                
Name
Phagosome - Corvus cornix (hooded crow)
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
ccw04145  Phagosome
ccw04145

Other DBs
GO: 0045335
Organism
Corvus cornix (hooded crow) [GN:ccw]
Gene
104693270  VAMP3; vesicle-associated membrane protein 3 [KO:K13505]
104690588  STX7; syntaxin-7 [KO:K08488]
104684799  ACTB; actin, cytoplasmic 1 [KO:K05692]
120410965  ACTG1; LOW QUALITY PROTEIN: actin, cytoplasmic 2 [KO:K05692]
104690908  STX18; syntaxin-18 [KO:K08492]
104695601  SEC22B; vesicle-trafficking protein SEC22b [KO:K08517]
120412176  class I histocompatibility antigen, F10 alpha chain-like [KO:K06751]
120412174  LOW QUALITY PROTEIN: class II histocompatibility antigen, B-L beta chain-like [KO:K06752]
104689064  RAB5A; ras-related protein Rab-5A [KO:K07887]
104697759  RAB5C; ras-related protein Rab-5C [KO:K07889]
104696453  EEA1; early endosome antigen 1 isoform X1 [KO:K12478]
104694819  PIK3C3; phosphatidylinositol 3-kinase catalytic subunit type 3 isoform X1 [KO:K00914] [EC:2.7.1.137]
104687936  TFRC; transferrin receptor protein 1 isoform X1 [KO:K06503]
104698230  HGS; hepatocyte growth factor-regulated tyrosine kinase substrate isoform X1 [KO:K12182]
104687098  ATP6V1A; V-type proton ATPase catalytic subunit A [KO:K02145] [EC:7.1.2.2]
104694843  ATP6V1B2; LOW QUALITY PROTEIN: V-type proton ATPase subunit B, brain isoform [KO:K02147]
104685440  ATP6V1C2; V-type proton ATPase subunit C 2 isoform X1 [KO:K02148]
104692705  ATP6V1C1; V-type proton ATPase subunit C 1 [KO:K02148]
104683864  ATP6V1D; V-type proton ATPase subunit D [KO:K02149]
104692248  ATP6V1E1; V-type proton ATPase subunit E 1 [KO:K02150]
120411927  ATP6V1F; V-type proton ATPase subunit F [KO:K02151]
104688445  ATP6V1G1; V-type proton ATPase subunit G 1 [KO:K02152]
104695413  ATP6V1G3; V-type proton ATPase subunit G 3 [KO:K02152]
104689503  ATP6V0E1; V-type proton ATPase subunit e 1 [KO:K02153]
104697907  V-type proton ATPase subunit e 2 [KO:K02153]
104688729  ATP6V0A2; V-type proton ATPase 116 kDa subunit a2 [KO:K02154]
104696215  ATP6V0A4; V-type proton ATPase 116 kDa subunit a [KO:K02154]
104693012  TCIRG1; V-type proton ATPase 116 kDa subunit a3 [KO:K02154]
104697763  ATP6V0A1; V-type proton ATPase 116 kDa subunit a1 isoform X1 [KO:K02154]
104691774  ATP6V0D1; V-type proton ATPase subunit d 1 [KO:K02146]
104692772  ATP6V0D2; V-type proton ATPase subunit d 2 [KO:K02146]
104690391  ATP6V1H; V-type proton ATPase subunit H [KO:K02144]
104684642  ATP6V0C; V-type proton ATPase 16 kDa proteolipid subunit [KO:K02155]
104695263  ATP6V0B; V-type proton ATPase 21 kDa proteolipid subunit [KO:K03661]
104686818  V-type proton ATPase subunit S1 [KO:K03662]
104683283  RAB7A; ras-related protein Rab-7a [KO:K07897]
104692360  RAB7B; ras-related protein Rab-7b isoform X1 [KO:K07898]
104691212  rab-interacting lysosomal protein [KO:K13883]
104688833  DYNC1H1; cytoplasmic dynein 1 heavy chain 1 [KO:K10413]
104690111  DYNC2H1; cytoplasmic dynein 2 heavy chain 1 isoform X1 [KO:K10414]
104693881  DYNC1I2; cytoplasmic dynein 1 intermediate chain 2 isoform X1 [KO:K10415]
104689331  DYNC1I1; cytoplasmic dynein 1 intermediate chain 1 isoform X1 [KO:K10415]
104687406  DYNC1LI2; cytoplasmic dynein 1 light intermediate chain 2 [KO:K10416]
104689291  DYNC1LI1; cytoplasmic dynein 1 light intermediate chain 1 [KO:K10416]
104688184  tubulin alpha-3 chain [KO:K07374]
104693949  LOW QUALITY PROTEIN: tubulin alpha-4A chain [KO:K07374]
104692253  TUBA8; tubulin alpha-8 chain [KO:K07374]
104692452  tubulin alpha-8 chain [KO:K07374]
104695968  TUBAL3; tubulin alpha chain-like 3 [KO:K07374]
120410287  tubulin alpha-5 chain [KO:K07374]
104687268  TUBB6; tubulin beta-6 chain [KO:K07375]
104687625  TUBB1; tubulin beta-1 chain isoform X1 [KO:K07375]
104691940  TUBB3; tubulin beta-3 chain [KO:K07375]
104688225  LOW QUALITY PROTEIN: tubulin beta-2 chain [KO:K07375]
120409623  TUBB4B; tubulin beta-4B chain [KO:K07375]
104686321  LAMP1; lysosome-associated membrane glycoprotein 1 [KO:K06528]
104694434  LAMP2; LOW QUALITY PROTEIN: lysosome-associated membrane glycoprotein 2 [KO:K06528]
104693820  PIKFYVE; 1-phosphatidylinositol 3-phosphate 5-kinase isoform X4 [KO:K00921] [EC:2.7.1.150]
104690270  M6PR; LOW QUALITY PROTEIN: cation-dependent mannose-6-phosphate receptor [KO:K10089]
104695038  NOS1; nitric oxide synthase, brain isoform X1 [KO:K13240] [EC:1.14.13.39]
104695782  myeloperoxidase-like [KO:K10789] [EC:1.11.2.2]
104692009  CTSL; procathepsin L [KO:K01365] [EC:3.4.22.15]
104683473  SEC61A1; LOW QUALITY PROTEIN: protein transport protein Sec61 subunit alpha [KO:K10956]
104694503  SEC61A2; protein transport protein Sec61 subunit alpha isoform X2 [KO:K10956]
104685816  SEC61B; protein transport protein Sec61 subunit beta [KO:K09481]
104688920  SEC61G; protein transport protein Sec61 subunit gamma [KO:K07342]
120412065  antigen peptide transporter 1-like [KO:K05653] [EC:7.4.2.14]
120412070  LOW QUALITY PROTEIN: antigen peptide transporter 2-like [KO:K05654] [EC:7.4.2.14]
104689588  CANX; calnexin [KO:K08054]
104687137  C1R; complement C1r subcomponent [KO:K01330] [EC:3.4.21.41]
104698247  ITGB2; integrin beta-2 [KO:K06464]
104685461  COLEC11; collectin-11 isoform X1 [KO:K10066]
104687354  COLEC12; collectin-12 [KO:K10062]
104690217  SFTPD; pulmonary surfactant-associated protein D [KO:K10067]
104690216  pulmonary surfactant-associated protein A-like [KO:K10067]
104693720  ITGAV; integrin alpha-V [KO:K06487]
104686657  ITGA2; integrin alpha-2 isoform X1 [KO:K06481]
104686529  ITGB1; integrin beta-1 isoform X1 [KO:K05719]
104698490  ITGB3; integrin beta-3 isoform X1 [KO:K06493]
104694025  ITGB5; integrin beta-5 [KO:K06588]
104684025  THBS1; thrombospondin-1 [KO:K16857]
104695692  THBS4; thrombospondin-4 [KO:K04659]
104697387  LOW QUALITY PROTEIN: cartilage oligomeric matrix protein [KO:K04659]
104684330  THBS2; thrombospondin-2 isoform X2 [KO:K04659]
104697168  TLR2; toll-like receptor 2 [KO:K10159]
120409612  LOW QUALITY PROTEIN: toll-like receptor 2 type-1 [KO:K10159]
104690679  LOW QUALITY PROTEIN: toll-like receptor 6 [KO:K10169]
104688244  TLR4; toll-like receptor 4 [KO:K10160]
104689211  macrophage mannose receptor 1 [KO:K06560]
104689212  macrophage mannose receptor 1-like [KO:K06560]
104689215  macrophage mannose receptor 1-like isoform X1 [KO:K06560]
104689214  macrophage mannose receptor 1-like isoform X1 [KO:K06560]
104693936  PLA2R1; secretory phospholipase A2 receptor isoform X2 [KO:K06560]
104689213  macrophage mannose receptor 1-like isoform X2 [KO:K06560]
104698488  MRC2; C-type mannose receptor 2 isoform X1 [KO:K06560]
104694053  MARCO; macrophage receptor MARCO isoform X2 [KO:K13884]
104688736  SCARB1; scavenger receptor class B member 1 isoform X1 [KO:K13885]
104686891  CD36; platelet glycoprotein 4 [KO:K06259]
120410609  cytochrome b-245 light chain [KO:K08009]
104686217  cytochrome b-245 heavy chain [KO:K21421] [EC:1.-.-.-]
104684856  RAC1; ras-related C3 botulinum toxin substrate 1 isoform X1 [KO:K04392]
104695773  NCF1; neutrophil cytosol factor 1 isoform X1 [KO:K08011]
104693619  NCF2; neutrophil cytosol factor 2 isoform X4 [KO:K08010]
104696285  NCF4; neutrophil cytosol factor 4 isoform X2 [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
ccw04142  Lysosome
ccw04144  Endocytosis
ccw04620  Toll-like receptor signaling pathway
KO pathway
ko04145   
LinkDB

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