KEGG   PATHWAY: pop00195
Entry
pop00195                    Pathway                                
Name
Photosynthesis - Populus trichocarpa (black cottonwood)
Description
Photosynthesis in green plants and specialized bacteria is the process of utilizing light energy to synthesize organic compounds from carbon dioxide and water. It consists of the light dependent part (light reaction) and the light independent part (dark reaction, carbon fixation). The light reaction takes place in thylakoid, a membrane-bound compartment inside chloroplasts and cyanobacteria. The light energy is used by photosystems I and II to generate proton motive force and reducing power (NADPH or NADH). The proton motive force is used by ATP synthase to generate ATP, essentially in the same way as the mitochondrial respiratory chain. The supplies of ATP and NAD(P)H are then used to fix carbon dioxide.
Class
Metabolism; Energy metabolism
Pathway map
pop00195  Photosynthesis
pop00195

Module
pop_M00157  F-type ATPase, prokaryotes and chloroplasts [PATH:pop00195]
pop_M00161  Photosystem II [PATH:pop00195]
pop_M00163  Photosystem I [PATH:pop00195]
Organism
Populus trichocarpa (black cottonwood) [GN:pop]
Gene
4929629  psbA; photosystem II protein D1 [KO:K02703] [EC:1.10.3.9]
127904145  photosystem II protein D1 [KO:K02703] [EC:1.10.3.9]
127905364  photosystem II protein D1-like [KO:K02703] [EC:1.10.3.9]
4929699  psbB; photosystem II 47 kDa protein [KO:K02704]
127904015  photosystem II CP47 reaction center protein-like [KO:K02704]
127904016  photosystem II CP47 reaction center protein [KO:K02704]
4929655  psbC; photosystem II 44 kDa protein [KO:K02705]
127904143  photosystem II CP43 reaction center protein [KO:K02705]
4929654  psbD; photosystem II protein D2 [KO:K02706] [EC:1.10.3.9]
4929687  psbE; photosystem II protein V [KO:K02707]
4929686  psbF; photosystem II protein VI [KO:K02708]
4929702  psbH; photosystem II protein H [KO:K02709]
4929634  psbI; photosystem II protein I [KO:K02710]
4929684  psbJ; photosystem II protein J [KO:K02711]
4929633  psbK; photosystem II protein K [KO:K02712]
4929685  psbL; photosystem II protein L [KO:K02713]
4929648  psbM; photosystem II protein M [KO:K02714]
7480481  oxygen-evolving enhancer protein 1, chloroplastic [KO:K02716]
7473131  oxygen-evolving enhancer protein 1, chloroplastic [KO:K02716]
7464819  oxygen-evolving enhancer protein 2, chloroplastic [KO:K02717]
7458603  psbP-like protein 1, chloroplastic isoform X2 [KO:K02717]
7480710  oxygen-evolving enhancer protein 2, chloroplastic [KO:K02717]
7490773  oxygen-evolving enhancer protein 3, chloroplastic [KO:K08901]
7492927  photosynthetic NDH subunit of lumenal location 2, chloroplastic [KO:K08901]
7495298  oxygen-evolving enhancer protein 3-2, chloroplastic [KO:K08901]
18095888  photosynthetic NDH subunit of lumenal location 3, chloroplastic [KO:K08901]
7454978  photosystem II 10 kDa polypeptide, chloroplastic [KO:K03541]
7470970  photosystem II 10 kDa polypeptide, chloroplastic [KO:K03541]
18095761  photosystem II 10 kDa polypeptide, chloroplastic [KO:K03541]
18095762  photosystem II 10 kDa polypeptide, chloroplastic [KO:K03541]
7463155  photosystem II 22 kDa protein, chloroplastic [KO:K03542]
4929700  psbT; photosystem II protein T [KO:K02718]
7479997  photosystem II reaction center W protein, chloroplastic [KO:K02721]
7476887  photosystem II reaction center W protein, chloroplastic [KO:K02721]
7460727  photosystem II core complex proteins psbY, chloroplastic [KO:K02723]
7480941  photosystem II core complex proteins psbY, chloroplastic [KO:K02723]
4929658  psbZ; photosystem II protein Z [KO:K02724]
7480713  photosystem II repair protein PSB27-H1, chloroplastic [KO:K08902]
7464661  photosystem II repair protein PSB27-H1, chloroplastic [KO:K08902]
7459542  photosystem II reaction center PSB28 protein, chloroplastic [KO:K08903]
4929663  psaA; photosystem I P700 chlorophyll a apoprotein A1 [KO:K02689] [EC:1.97.1.12]
127904138  photosystem I P700 chlorophyll a apoprotein A1 [KO:K02689] [EC:1.97.1.12]
4929662  psaB; photosystem I P700 chlorophyll a apoprotein A2 [KO:K02690] [EC:1.97.1.12]
127904139  photosystem I P700 chlorophyll a apoprotein A2 [KO:K02690] [EC:1.97.1.12]
4929741  psaC; photosystem I subunit VII [KO:K02691] [EC:1.97.1.12]
7474216  photosystem I reaction center subunit II, chloroplastic [KO:K02692]
7467482  photosystem I reaction center subunit II, chloroplastic [KO:K02692]
7471200  photosystem I reaction center subunit IV A, chloroplastic isoform X2 [KO:K02693]
7477808  photosystem I reaction center subunit III, chloroplastic [KO:K02694]
7457672  photosystem I reaction center subunit V, chloroplastic [KO:K08905]
18103568  photosystem I reaction center subunit V, chloroplastic [KO:K08905]
7478401  photosystem I reaction center subunit VI, chloroplastic [KO:K02695]
4929680  psaI; photosystem I subunit VIII [KO:K02696]
4929692  psaJ; photosystem I subunit IX [KO:K02697]
7471593  photosystem I reaction center subunit psaK, chloroplastic [KO:K02698]
18107507  photosystem I reaction center subunit psaK, chloroplastic [KO:K02698]
7471126  photosystem I reaction center subunit XI, chloroplastic [KO:K02699]
7463368  photosystem I reaction center subunit XI, chloroplastic [KO:K02699]
7466740  photosystem I reaction center subunit N, chloroplastic isoform X1 [KO:K02701]
7466843  photosystem I reaction center subunit N, chloroplastic [KO:K02701]
7478569  photosystem I subunit O [KO:K14332]
18098086  photosystem I subunit O [KO:K14332]
4929683  petA; cytochrome f [KO:K02634]
127904146  cytochrome f [KO:K02634]
127904422  cytochrome f-like [KO:K02634]
4929703  petB; cytochrome b6 [KO:K02635]
7498162  cytochrome b6-f complex iron-sulfur subunit, chloroplastic [KO:K02636] [EC:7.1.1.6]
7494443  cytochrome b6-f complex iron-sulfur subunit, chloroplastic [KO:K02636] [EC:7.1.1.6]
4929704  petD; cytochrome b6/f complex subunit IV [KO:K02637]
4929689  petG; cytochrome b6/f complex subunit V [KO:K02640]
4929647  petN; cytochrome b6/f complex subunit VIII [KO:K03689]
7496895  plastocyanin B, chloroplastic [KO:K02638]
7485623  plastocyanin A, chloroplastic [KO:K02638]
7471708  uncharacterized protein LOC7471708 [KO:K02639]
7486907  ferredoxin, root R-B1 isoform X2 [KO:K02639]
7480754  ferredoxin-A [KO:K02639]
7477164  ferredoxin, root R-B1 [KO:K02639]
7474908  uncharacterized protein LOC7474908 [KO:K02639]
7467494  ferredoxin C 1, chloroplastic [KO:K02639]
7474207  ferredoxin C 1, chloroplastic [KO:K02639]
18098271  ferredoxin [KO:K02639]
18098115  ferredoxin, root R-B2 [KO:K02639]
18096958  ferredoxin C 2, chloroplastic [KO:K02639]
18097130  ferredoxin-1, chloroplastic [KO:K02639]
7487565  ferredoxin--NADP reductase, root isozyme, chloroplastic [KO:K02641] [EC:1.18.1.2]
18099184  ferredoxin--NADP reductase, leaf isozyme, chloroplastic [KO:K02641] [EC:1.18.1.2]
18101088  ferredoxin--NADP reductase, leaf isozyme, chloroplastic [KO:K02641] [EC:1.18.1.2]
18105957  cytochrome c6, chloroplastic isoform X2 [KO:K08906]
4929675  atpE; ATP synthase CF1 epsilon subunit [KO:K02114]
4929676  atpB; ATP synthase CF1 beta subunit [KO:K02112] [EC:7.1.2.2 7.2.2.1]
127904141  ATP synthase subunit beta, chloroplastic [KO:K02112] [EC:7.1.2.2 7.2.2.1]
7485426  ATP synthase gamma chain, chloroplastic [KO:K02115]
112325759  ATP synthase gamma chain, chloroplastic [KO:K02115]
4929638  atpA; ATP synthase CF1 alpha subunit [KO:K02111] [EC:7.1.2.2 7.2.2.1]
127904140  ATP synthase subunit alpha, chloroplastic [KO:K02111] [EC:7.1.2.2 7.2.2.1]
7486791  ATP synthase subunit delta, chloroplastic [KO:K02113]
7467447  ATP synthase subunit delta, chloroplastic [KO:K02113]
18104499  ATP synthase delta chain, chloroplastic [KO:K02113]
7471598  ATP synthase subunit b', chloroplastic [KO:K02109]
7465390  ATP synthase subunit b', chloroplastic [KO:K02109]
4929639  atpF; ATP synthase CF0 B subunit [KO:K02109]
127904150  ATP synthase subunit b, chloroplastic [KO:K02109]
4929640  atpH; ATP synthase CF0 C subunit [KO:K02110]
4929641  atpI; ATP synthase CF0 A subunit [KO:K02108]
Compound
C00001  H2O
C00002  ATP
C00005  NADPH
C00006  NADP+
C00007  Oxygen
C00008  ADP
C00009  Orthophosphate
C00034  Manganese
C00080  H+
C02061  Plastoquinone
C16693  Plastoquinol
Reference
PMID:14764885
  Authors
Ferreira KN, Iverson TM, Maghlaoui K, Barber J, Iwata S.
  Title
Architecture of the photosynthetic oxygen-evolving center.
  Journal
Science 303:1831-8 (2004)
DOI:10.1126/science.1093087
Reference
PMID:12518057
  Authors
Kamiya N, Shen JR.
  Title
Crystal structure of oxygen-evolving photosystem II from Thermosynechococcus vulcanus at 3.7-A resolution.
  Journal
Proc Natl Acad Sci U S A 100:98-103 (2003)
DOI:10.1073/pnas.0135651100
Reference
PMID:11217865
  Authors
Zouni A, Witt HT, Kern J, Fromme P, Krauss N, Saenger W, Orth P.
  Title
Crystal structure of photosystem II from Synechococcus elongatus at 3.8 A resolution.
  Journal
Nature 409:739-743 (2001)
DOI:10.1038/35055589
Reference
PMID:11418848
  Authors
Jordan P, Fromme P, Witt HT, Klukas O, Saenger W, Krauss N.
  Title
Three-dimensional structure of cyanobacterial photosystem I at 2.5 A resolution.
  Journal
Nature 411:909-917 (2001)
DOI:10.1038/35082000
Reference
PMID:11369223
  Authors
Jones MR, Fyfe PK.
  Title
Photosynthesis: new light on biological oxygen production.
  Journal
Curr Biol 17:R318-R321 (2001)
DOI:10.1016/S0960-9822(01)00174-9
Reference
PMID:11914373
  Authors
Shen G, Zhao J, Reimer SK, Antonkine ML, Cai Q, Weiland SM, Golbeck JH, Bryant DA.
  Title
Assembly of photosystem I. I. Inactivation of the rubA gene encoding a membrane-associated rubredoxin in the cyanobacterium Synechococcus sp. PCC 7002 causes a loss of photosystem I activity.
  Journal
J Biol Chem 277:20343-54 (2002)
DOI:10.1074/jbc.M201103200
Related
pathway
pop00196  Photosynthesis - antenna proteins
pop00710  Carbon fixation by Calvin cycle
KO pathway
ko00195   
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