KEGG   PATHWAY: umr04145
Entry
umr04145                    Pathway                                
Name
Phagosome - Ursus maritimus (polar bear)
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
umr04145  Phagosome
umr04145

Other DBs
GO: 0045335
Organism
Ursus maritimus (polar bear) [GN:umr]
Gene
103666690  VAMP3; vesicle-associated membrane protein 3 [KO:K13505]
103666755  STX12; syntaxin-12 [KO:K13813]
103663404  STX7; syntaxin-7 [KO:K08488]
103665813  ACTG1; actin, cytoplasmic 2 [KO:K05692]
103670086  ACTB; actin, cytoplasmic 1 [KO:K05692]
103657826  CORO1A; coronin-1A [KO:K13882]
103658300  STX18; syntaxin-18 isoform X1 [KO:K08492]
103677115  SEC22B; vesicle-trafficking protein SEC22b [KO:K08517]
103680441  DLA class I histocompatibility antigen, A9/A9 alpha chain-like isoform X1 [KO:K06751]
103656357  H-2 class I histocompatibility antigen, Q10 alpha chain [KO:K06751]
103680561  DLA class I histocompatibility antigen, A9/A9 alpha chain-like [KO:K06751]
103672268  class I histocompatibility antigen, Gogo-OKO alpha chain [KO:K06751]
103682344  patr class I histocompatibility antigen, A-2 alpha chain-like [KO:K06751]
121104340  LOW QUALITY PROTEIN: DLA class I histocompatibility antigen, A9/A9 alpha chain-like [KO:K06751]
103665506  HLA class II histocompatibility antigen, DO alpha chain [KO:K06752]
103665508  HLA class II histocompatibility antigen, DM alpha chain isoform X1 [KO:K06752]
103665509  HLA class II histocompatibility antigen, DM beta chain isoform X1 [KO:K06752]
103665516  HLA class II histocompatibility antigen, DO beta chain isoform X1 [KO:K06752]
103665517  DLA class II histocompatibility antigen, DR-1 beta chain-like [KO:K06752]
103665518  boLa class II histocompatibility antigen, DQB*0101 beta chain-like [KO:K06752]
103665519  SLA class II histocompatibility antigen, DQ haplotype D alpha chain [KO:K06752]
103665521  DLA class II histocompatibility antigen, DR-1 beta chain [KO:K06752]
103665522  HLA class II histocompatibility antigen, DR alpha chain [KO:K06752]
103665562  LOW QUALITY PROTEIN: HLA class II histocompatibility antigen, DP beta 1 chain [KO:K06752]
103679620  RAB5A; ras-related protein Rab-5A [KO:K07887]
103682516  RAB5B; ras-related protein Rab-5B [KO:K07888]
103672568  RAB5C; ras-related protein Rab-5C [KO:K07889]
103660095  EEA1; early endosome antigen 1 [KO:K12478]
103663663  PIK3C3; phosphatidylinositol 3-kinase catalytic subunit type 3 [KO:K00914] [EC:2.7.1.137]
103678941  TFRC; transferrin receptor protein 1 isoform X1 [KO:K06503]
103665999  HGS; hepatocyte growth factor-regulated tyrosine kinase substrate isoform X1 [KO:K12182]
103678812  ATP6V1A; V-type proton ATPase catalytic subunit A [KO:K02145] [EC:7.1.2.2]
103676707  ATP6V1B2; V-type proton ATPase subunit B, brain isoform [KO:K02147]
103671376  ATP6V1B1; V-type proton ATPase subunit B, kidney isoform [KO:K02147]
103661526  ATP6V1C1; V-type proton ATPase subunit C 1 isoform X1 [KO:K02148]
103660482  ATP6V1C2; V-type proton ATPase subunit C 2 [KO:K02148]
103671988  ATP6V1D; V-type proton ATPase subunit D isoform X1 [KO:K02149]
103675697  ATP6V1E1; V-type proton ATPase subunit E 1 [KO:K02150]
103671228  ATP6V1E2; V-type proton ATPase subunit E 2 [KO:K02150]
103676644  ATP6V1F; V-type proton ATPase subunit F [KO:K02151]
103657687  ATP6V1G3; V-type proton ATPase subunit G 3 [KO:K02152]
103682324  ATP6V1G2; V-type proton ATPase subunit G 2 isoform X4 [KO:K02152]
103670393  ATP6V1G1; V-type proton ATPase subunit G 1 [KO:K02152]
103664487  ATP6V0E1; V-type proton ATPase subunit e 1 [KO:K02153]
103668950  ATP6V0E2; V-type proton ATPase subunit e 2 [KO:K02153]
103661250  ATP6V0A2; V-type proton ATPase 116 kDa subunit a2 [KO:K02154]
103669049  ATP6V0A4; V-type proton ATPase 116 kDa subunit a [KO:K02154]
103672574  ATP6V0A1; V-type proton ATPase 116 kDa subunit a1 isoform X1 [KO:K02154]
103679623  TCIRG1; V-type proton ATPase 116 kDa subunit a3 [KO:K02154]
103661399  ATP6V0D2; V-type proton ATPase subunit d 2 [KO:K02146]
103673659  ATP6V0D1; V-type proton ATPase subunit d 1 [KO:K02146]
103677423  ATP6V1H; V-type proton ATPase subunit H [KO:K02144]
103668497  ATP6V0C; V-type proton ATPase 16 kDa proteolipid subunit [KO:K02155]
103670801  ATP6V0B; V-type proton ATPase 21 kDa proteolipid subunit isoform X1 [KO:K03661]
103679685  ATP6AP1; V-type proton ATPase subunit S1 [KO:K03662]
103669493  RAB7A; ras-related protein Rab-7a [KO:K07897]
103670999  RAB7B; ras-related protein Rab-7b isoform X2 [KO:K07898]
103667388  rab-interacting lysosomal protein isoform X1 [KO:K13883]
121105050  rab-interacting lysosomal protein-like [KO:K13883]
103656777  DYNC1H1; cytoplasmic dynein 1 heavy chain 1 isoform X1 [KO:K10413]
103662544  DYNC2H1; cytoplasmic dynein 2 heavy chain 1 [KO:K10414]
103659562  DYNC1I2; cytoplasmic dynein 1 intermediate chain 2 isoform X1 [KO:K10415]
103658747  DYNC1I1; cytoplasmic dynein 1 intermediate chain 1 isoform X3 [KO:K10415]
103682045  DYNC1LI1; cytoplasmic dynein 1 light intermediate chain 1 [KO:K10416]
103673737  DYNC1LI2; cytoplasmic dynein 1 light intermediate chain 2 isoform X1 [KO:K10416]
103657723  tubulin alpha-8 chain [KO:K07374]
103662744  tubulin alpha-4A chain [KO:K07374]
103669231  tubulin alpha-3 chain isoform X1 [KO:K07374]
103669237  tubulin alpha-3 chain-like [KO:K07374]
103676280  TUBAL3; tubulin alpha chain-like 3 [KO:K07374]
103675456  TUBA1B; tubulin alpha-1B chain [KO:K07374]
103675457  tubulin alpha-1C chain [KO:K07374]
103675459  tubulin alpha-1B chain [KO:K07374]
103675693  TUBA8; tubulin alpha-8 chain isoform X1 [KO:K07374]
103681710  TUBB4A; tubulin beta-4A chain [KO:K07375]
103673863  tubulin beta-3 chain [KO:K07375]
103673361  TUBB6; tubulin beta-6 chain [KO:K07375]
103675253  TUBB4B; tubulin beta-4B chain [KO:K07375]
103670962  TUBB1; tubulin beta-1 chain isoform X1 [KO:K07375]
103665004  TUBB; tubulin beta chain [KO:K07375]
103664961  TUBB2A; tubulin beta-2A chain isoform X1 [KO:K07375]
103657524  LAMP1; lysosome-associated membrane glycoprotein 1 [KO:K06528]
103680234  LAMP2; lysosome-associated membrane glycoprotein 2 isoform X1 [KO:K06528]
103659810  PIKFYVE; 1-phosphatidylinositol 3-phosphate 5-kinase [KO:K00921] [EC:2.7.1.150]
103669161  M6PR; cation-dependent mannose-6-phosphate receptor [KO:K10089]
103661304  NOS1; nitric oxide synthase, brain [KO:K13240] [EC:1.14.13.39]
103667463  MPO; myeloperoxidase [KO:K10789] [EC:1.11.2.2]
103682224  CTSV; cathepsin L2 [KO:K01365] [EC:3.4.22.15]
103682209  procathepsin L [KO:K01365] [EC:3.4.22.15]
103682229  procathepsin L-like [KO:K01365] [EC:3.4.22.15]
103667539  CTSS; cathepsin S isoform X1 [KO:K01368] [EC:3.4.22.27]
103676291  SEC61A2; protein transport protein Sec61 subunit alpha isoform X1 [KO:K10956]
103669615  SEC61A1; protein transport protein Sec61 subunit alpha [KO:K10956]
103678507  SEC61B; protein transport protein Sec61 subunit beta [KO:K09481]
103674548  SEC61G; protein transport protein Sec61 subunit gamma [KO:K07342]
103665513  TAP1; antigen peptide transporter 1 [KO:K05653] [EC:7.4.2.14]
103665515  TAP2; antigen peptide transporter 2 [KO:K05654] [EC:7.4.2.14]
103682146  CALR; calreticulin [KO:K08057]
103679986  CANX; calnexin [KO:K08054]
103667577  FCGR1A; high affinity immunoglobulin gamma Fc receptor I [KO:K06498]
103658249  FCGR2B; low affinity immunoglobulin gamma Fc region receptor II-b [KO:K12560]
103658250  low affinity immunoglobulin gamma Fc region receptor III-B isoform X1 [KO:K06463]
103656175  C1R; complement C1r subcomponent [KO:K01330] [EC:3.4.21.41]
103657890  ITGAM; integrin alpha-M isoform X1 [KO:K06461]
103680739  ITGB2; integrin beta-2 [KO:K06464]
103681871  C3; complement C3 [KO:K03990]
103658330  COLEC11; collectin-11 isoform X1 [KO:K10066]
103664717  COLEC12; collectin-12 [KO:K10062]
103667862  MBL2; mannose-binding protein C [KO:K03991]
103667863  pulmonary surfactant-associated protein A [KO:K10067]
103667860  SFTPD; pulmonary surfactant-associated protein D [KO:K10068]
103659655  ITGAV; integrin alpha-V isoform X1 [KO:K06487]
103664633  ITGA2; integrin alpha-2 [KO:K06481]
103675680  ITGA5; integrin alpha-5 isoform X1 [KO:K06484]
103656511  ITGB1; integrin beta-1 [KO:K05719]
103665892  ITGB3; integrin beta-3 [KO:K06493]
103678821  ITGB5; integrin beta-5 isoform X1 [KO:K06588]
103673473  THBS1; thrombospondin-1 [KO:K16857]
103660792  THBS2; thrombospondin-2 [KO:K04659]
103681497  THBS4; thrombospondin-4 [KO:K04659]
103668378  THBS3; thrombospondin-3 isoform X1 [KO:K04659]
103674931  cartilage oligomeric matrix protein [KO:K04659]
103658031  toll-like receptor 2 [KO:K10159]
103672667  TLR6; toll-like receptor 6 [KO:K10169]
103670382  TLR4; toll-like receptor 4 [KO:K10160]
103663749  CD14; monocyte differentiation antigen CD14 isoform X1 [KO:K04391]
103659863  PLA2R1; secretory phospholipase A2 receptor isoform X1 [KO:K06560]
103664212  MRC1; macrophage mannose receptor 1 [KO:K06560]
103665895  MRC2; C-type mannose receptor 2 [KO:K06560]
103681734  CD209; CD209 antigen isoform X1 [KO:K06563]
103669135  CLEC7A; C-type lectin domain family 7 member A isoform X1 [KO:K10074]
103681333  MSR1; macrophage scavenger receptor types I and II isoform X1 [KO:K06558]
103658595  MARCO; macrophage receptor MARCO [KO:K13884]
103669134  OLR1; oxidized low-density lipoprotein receptor 1 isoform X1 [KO:K08763]
103661123  SCARB1; scavenger receptor class B member 1 isoform X1 [KO:K13885]
103658666  CD36; platelet glycoprotein 4 isoform X1 [KO:K06259]
103673846  cytochrome b-245 light chain [KO:K08009]
103668228  cytochrome b-245 heavy chain [KO:K21421] [EC:1.-.-.-]
103670095  RAC1; ras-related C3 botulinum toxin substrate 1 [KO:K04392]
103670166  NCF1; neutrophil cytosol factor 1 isoform X1 [KO:K08011]
103672508  NCF2; neutrophil cytosol factor 2 [KO:K08010]
103676418  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
umr04142  Lysosome
umr04144  Endocytosis
umr04610  Complement and coagulation cascades
umr04612  Antigen processing and presentation
umr04620  Toll-like receptor signaling pathway
umr04666  Fc gamma R-mediated phagocytosis
KO pathway
ko04145   
LinkDB

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