KEGG   PATHWAY: osa04120
Entry
osa04120                    Pathway                                
Name
Ubiquitin mediated proteolysis - Oryza sativa japonica (Japanese rice)
Description
Protein ubiquitination plays an important role in eukaryotic cellular processes. It mainly functions as a signal for 26S proteasome dependent protein degradation. The addition of ubiquitin to proteins being degraded is performed by a reaction cascade consisting of three enzymes, named E1 (ubiquitin activating enzyme), E2 (ubiquitin conjugating enzyme), and E3 (ubiquitin ligase). Each E3 has specificity to its substrate, or proteins to be targeted by ubiquitination. Many E3s are discovered in eukaryotes and they are classified into four types: HECT type, U-box type, single RING-finger type, and multi-subunit RING-finger type. Multi-subunit RING-finger E3s are exemplified by cullin-Rbx E3s and APC/C. They consist of a RING-finger-containing subunit (RBX1 or RBX2) that functions to bind E2s, a scaffold-like cullin molecule, adaptor proteins, and a target recognizing subunit that binds substrates.
Class
Genetic Information Processing; Folding, sorting and degradation
Pathway map
osa04120  Ubiquitin mediated proteolysis
osa04120

Other DBs
GO: 0016567
Organism
Oryza sativa japonica (Japanese rice) [GN:osa]
Gene
4328390  polyubiquitin [KO:K08770]
9272016  polyubiquitin [KO:K08770]
4337080  OsJ_16259; polyubiquitin 3 [KO:K08770]
4348886  polyubiquitin [KO:K08770]
4332169  OJ1175C11.2; ubiquitin-ribosomal protein eL40z fusion protein [KO:K02927]
4332312  ubiquitin-ribosomal protein eL40A fusion protein [KO:K02927]
4343261  ubiquitin-ribosomal protein eL40 fusion protein [KO:K02927]
4347232  uncharacterized protein [KO:K02927]
4347411  uncharacterized protein isoform X1 [KO:K02927]
4347896  UBQ2; ubiquitin-ribosomal protein eL40y fusion protein [KO:K02927]
107277317  ubiquitin-ribosomal protein eL40 fusion protein [KO:K02927]
136351794  ubiquitin-ribosomal protein eL40z fusion protein-like [KO:K02927]
4326977  OsJ_01558; ubiquitin-ribosomal protein eS31z fusion protein [KO:K02977]
4337883  OsJ_17209; ubiquitin-ribosomal protein eS31y fusion protein [KO:K02977]
107277614  ubiquitin-ribosomal protein eS31 fusion protein [KO:K02977]
4349557  ubiquitin-activating enzyme E1 2 [KO:K03178] [EC:6.2.1.45]
4332529  ubiquitin-activating enzyme E1 3 [KO:K03178] [EC:6.2.1.45]
4344380  ubiquitin-activating enzyme E1 3 isoform X1 [KO:K03178] [EC:6.2.1.45]
9271171  ubiquitin-activating enzyme E1 2-like [KO:K03178] [EC:6.2.1.45]
4350554  SUMO-activating enzyme subunit 1A isoform X1 [KO:K10684] [EC:6.2.1.45]
4343750  SUMO-activating enzyme subunit 2 isoform X1 [KO:K10685] [EC:6.2.1.45]
4325169  NEDD8-activating enzyme E1 catalytic subunit [KO:K10686] [EC:6.2.1.64]
4342488  ubiquitin-conjugating enzyme E2 2 [KO:K10573] [EC:2.3.2.23]
4334386  ubiquitin-conjugating enzyme E2 2 [KO:K10573] [EC:2.3.2.23]
4337993  ubiquitin-conjugating enzyme E2 2 [KO:K10573] [EC:2.3.2.23]
4325174  uncharacterized protein [KO:K06688] [EC:2.3.2.23]
4328114  ubiquitin-conjugating enzyme E2 28 [KO:K06689] [EC:2.3.2.23]
4327450  ubiquitin-conjugating enzyme E2-17 kDa isoform X1 [KO:K06689] [EC:2.3.2.23]
4337331  ubiquitin-conjugating enzyme E2 28 [KO:K06689] [EC:2.3.2.23]
4346639  ubiquitin-conjugating enzyme E2-17 kDa [KO:K06689] [EC:2.3.2.23]
4327162  OsJ_02884; ubiquitin-conjugating enzyme E2 5A [KO:K06689] [EC:2.3.2.23]
4328940  OsJ_06152; ubiquitin-conjugating enzyme E2 5B [KO:K06689] [EC:2.3.2.23]
4341133  ubiquitin-conjugating enzyme E2-17 kDa [KO:K06689] [EC:2.3.2.23]
4327451  ubiquitin-conjugating enzyme E2-17 kDa [KO:K06689] [EC:2.3.2.23]
136356049  ubiquitin-conjugating enzyme E2-17 kDa-like isoform X1 [KO:K06689] [EC:2.3.2.23]
136356056  ubiquitin-conjugating enzyme E2-17 kDa-like [KO:K06689] [EC:2.3.2.23]
4339013  ubiquitin-conjugating enzyme E2 7 [KO:K10575] [EC:2.3.2.23]
4327386  P0408C03.9; ubiquitin-conjugating enzyme E2 7 [KO:K10575] [EC:2.3.2.23]
4348755  ubiquitin-conjugating enzyme E2 4 [KO:K10576] [EC:2.3.2.23]
4331446  SUMO-conjugating enzyme SCE1 [KO:K10577]
4349236  SUMO-conjugating enzyme SCE1 [KO:K10577]
4336760  SUMO-conjugating enzyme SCE1 [KO:K10577]
4332614  ubiquitin-conjugating enzyme E2 32 [KO:K10578] [EC:2.3.2.23]
4340379  ubiquitin-conjugating enzyme E2 34 [KO:K04554] [EC:2.3.2.23]
4327237  ubiquitin-conjugating enzyme E2 27 [KO:K04649] [EC:2.3.2.23]
4345411  NEDD8-conjugating enzyme Ubc12 [KO:K10579] [EC:2.3.2.34]
4346713  NEDD8-conjugating enzyme Ubc12 [KO:K10579] [EC:2.3.2.34]
4348232  NEDD8-conjugating enzyme Ubc12 [KO:K10579] [EC:2.3.2.34]
4325904  ubiquitin-conjugating enzyme E2 36 isoform X2 [KO:K10580] [EC:2.3.2.23]
4326008  probable ubiquitin-conjugating enzyme E2 23 isoform X1 [KO:K10581] [EC:2.3.2.24]
4324280  probable ubiquitin-conjugating enzyme E2 24 isoform X1 [KO:K10581] [EC:2.3.2.24]
4338168  putative ubiquitin-conjugating enzyme E2 38 [KO:K10581] [EC:2.3.2.24]
4324290  putative ubiquitin-conjugating enzyme E2 38 [KO:K10581] [EC:2.3.2.24]
4346643  putative ubiquitin-conjugating enzyme E2 38 [KO:K10581] [EC:2.3.2.24]
4339579  probable ubiquitin-conjugating enzyme E2 24 [KO:K10581] [EC:2.3.2.24]
107276513  putative ubiquitin-conjugating enzyme E2 38 [KO:K10581] [EC:2.3.2.24]
4341740  ubiquitin-conjugating enzyme E2 22 isoform X2 [KO:K10583] [EC:2.3.2.23]
4333728  probable ubiquitin-conjugating enzyme E2 18 [KO:K10688] [EC:2.3.2.23 2.3.2.25]
4352894  probable ubiquitin-conjugating enzyme E2 18 [KO:K10688] [EC:2.3.2.23 2.3.2.25]
4333737  E3 ubiquitin-protein ligase UPL7 isoform X1 [KO:K10588] [EC:2.3.2.26]
4337876  E3 ubiquitin-protein ligase UPL6 isoform X1 [KO:K10589] [EC:2.3.2.26]
4327983  E3 ubiquitin-protein ligase UPL3 [KO:K10590] [EC:2.3.2.26]
4337658  E3 ubiquitin-protein ligase UPL4 [KO:K10590] [EC:2.3.2.26]
4339037  E3 ubiquitin-protein ligase UPL4 isoform X1 [KO:K10590] [EC:2.3.2.26]
4352108  E3 ubiquitin-protein ligase UPL2 [KO:K10592] [EC:2.3.2.26]
4346522  E3 ubiquitin-protein ligase UPL1 isoform X1 [KO:K10592] [EC:2.3.2.26]
4333165  probable ubiquitin conjugation factor E4 [KO:K10597] [EC:2.3.2.27]
4337553  E3 ubiquitin-protein ligase CHIP isoform X1 [KO:K09561] [EC:2.3.2.27]
4344499  E3 ubiquitin-protein ligase CHIP [KO:K09561] [EC:2.3.2.27]
4331972  peptidyl-prolyl cis-trans isomerase CYP65 [KO:K10598] [EC:5.2.1.8]
4348844  OsJ_31829; pre-mRNA-processing factor 19 [KO:K10599] [EC:2.3.2.27]
4328179  E3 ubiquitin-protein ligase SINAT2 [KO:K04506] [EC:2.3.2.27]
4344172  E3 ubiquitin-protein ligase DIS1-like [KO:K04506] [EC:2.3.2.27]
4329066  E3 ubiquitin-protein ligase SINAT5 [KO:K04506] [EC:2.3.2.27]
4327774  E3 ubiquitin-protein ligase SINAT5 [KO:K04506] [EC:2.3.2.27]
4340862  putative E3 ubiquitin-protein ligase SINA-like 9 isoform X1 [KO:K04506] [EC:2.3.2.27]
9266295  E3 ubiquitin-protein ligase DIS1-like [KO:K04506] [EC:2.3.2.27]
9269391  E3 ubiquitin-protein ligase SINA-like 10 [KO:K04506] [EC:2.3.2.27]
107276545  E3 ubiquitin-protein ligase SINA-like 10 [KO:K04506] [EC:2.3.2.27]
4326047  putative E3 ubiquitin-protein ligase SINA-like 6 [KO:K04506] [EC:2.3.2.27]
4337836  E3 ubiquitin-protein ligase SINA-like 10 [KO:K04506] [EC:2.3.2.27]
9268150  E3 ubiquitin-protein ligase SINA-like 11 [KO:K04506] [EC:2.3.2.27]
4338181  E3 ubiquitin-protein ligase SINAT5 isoform X1 [KO:K04506] [EC:2.3.2.27]
112937615  E3 ubiquitin-protein ligase SINA-like 5 [KO:K04506] [EC:2.3.2.27]
136351892  E3 ubiquitin-protein ligase SINA-like 2 [KO:K04506] [EC:2.3.2.27]
136356525  putative E3 ubiquitin-protein ligase SINA-like 9 [KO:K04506] [EC:2.3.2.27]
136356526  putative E3 ubiquitin-protein ligase SINA-like 6 [KO:K04506] [EC:2.3.2.27]
136356527  E3 ubiquitin-protein ligase SINA-like 4 [KO:K04506] [EC:2.3.2.27]
112937424  putative E3 ubiquitin-protein ligase SINA-like 9 [KO:K04506] [EC:2.3.2.27]
4330868  E3 ubiquitin-protein ligase COP1 [KO:K10143] [EC:2.3.2.27]
107279948  WD repeat-containing protein RUP2 [KO:K10143] [EC:2.3.2.27]
4348796  E3 ubiquitin-protein ligase RZFP34 isoform X1 [KO:K10144] [EC:2.3.2.27]
4352424  E3 ubiquitin-protein ligase MIEL1 [KO:K10144] [EC:2.3.2.27]
4332833  E3 ubiquitin-protein ligase SRFP1-like [KO:K10144] [EC:2.3.2.27]
4324695  probable E3 ubiquitin-protein ligase RZFP34 [KO:K10144] [EC:2.3.2.27]
4331606  E3 ubiquitin-protein ligase RZFP34 isoform X2 [KO:K10144] [EC:2.3.2.27]
4340227  E4 SUMO-protein ligase PIAL1 [KO:K04706] [EC:2.3.2.-]
4340826  HRD1; eRAD-associated E3 ubiquitin-protein ligase HRD1 [KO:K10601] [EC:2.3.2.27]
4326152  RING-box protein 1A [KO:K03868] [EC:2.3.2.32]
4330476  uncharacterized protein [KO:K03868] [EC:2.3.2.32]
4325735  cullin-1-like [KO:K03347]
4337820  cullin-1-like isoform X1 [KO:K03347]
4325736  cullin-1 [KO:K03347]
4347721  SKP1-like protein 20 [KO:K03094]
4345419  SKP1-like protein 5 [KO:K03094]
4346586  SKP1-like protein 5 [KO:K03094]
4343963  SKP1-like protein 11 [KO:K03094]
4346592  SKP1-like protein 4 [KO:K03094]
4343000  SKP1-like protein 1 [KO:K03094]
4348713  SKP1-like protein 11 [KO:K03094]
4343962  SKP1-like protein 14 [KO:K03094]
4339908  SKP1-like protein 5 [KO:K03094]
4346585  probable disease resistance protein At1g61300 isoform X1 [KO:K03094]
9270098  OsJ_33809; SKP1-like protein 1 [KO:K03094]
107275366  SKP1-like protein 5 [KO:K03094]
107275430  SKP1-like protein 1A [KO:K03094]
107275462  SKP1-like protein 5 [KO:K03094]
107275506  SKP1-like protein 5 [KO:K03094]
107275529  SKP1-like protein 5 [KO:K03094]
107275695  SKP1-like protein 5 [KO:K03094]
107275970  SKP1-like protein 5 [KO:K03094]
107276398  SKP1-like protein 11 [KO:K03094]
107277355  SKP1-like protein 11 [KO:K03094]
107278210  SKP1-like protein 13 [KO:K03094]
107278737  SKP1-like protein 4 [KO:K03094]
107281645  SKP1-like protein 11 [KO:K03094]
107282017  SKP1-like protein 5 [KO:K03094]
136351860  SKP1-like protein 5 [KO:K03094]
107277129  SKP1-like protein 5 [KO:K03094]
4324993  F-box protein SKP2A [KO:K03875]
4338850  F-box protein SKP2A [KO:K03875]
4351227  uncharacterized protein [KO:K03872]
4330720  cullin-3A [KO:K03869]
4337175  cullin-3B [KO:K03869]
4344771  cullin-3A [KO:K03869]
4334354  cullin-4 [KO:K10609]
4339794  DBB1; DNA damage-binding protein 1 isoform 1 [KO:K10610]
4325482  DNA damage-binding protein 2-like [KO:K10140]
4329118  WD repeat-containing protein ATCSA-1 isoform X1 [KO:K10570]
4324761  WD repeat-containing protein ATCSA-1 isoform X1 [KO:K10570]
4326296  light-mediated development protein DET1 isoform X1 [KO:K10571]
4332583  anaphase-promoting complex subunit 11 [KO:K03358]
9272104  anaphase-promoting complex subunit 11 [KO:K03358]
4336204  anaphase-promoting complex subunit 2 [KO:K03349]
4330430  cell division cycle 20.2, cofactor of APC complex [KO:K03363]
4346480  cell division cycle 20.2, cofactor of APC complex isoform X2 [KO:K03363]
4336870  cell division cycle 20.2, cofactor of APC complex isoform X1 [KO:K03363]
4331448  protein FIZZY-RELATED 2 [KO:K03364]
4326397  protein FIZZY-RELATED 3 [KO:K03364]
4338511  anaphase-promoting complex subunit 1 [KO:K03348]
4341553  cell division cycle protein 27 homolog B isoform X1 [KO:K03350]
4330947  anaphase-promoting complex subunit 4 isoform X1 [KO:K03351]
4352845  anaphase-promoting complex subunit 5 isoform X2 [KO:K03352]
9267792  anaphase-promoting complex subunit 6 [KO:K03353]
4337822  anaphase-promoting complex subunit 7 [KO:K03354]
4330199  anaphase-promoting complex subunit 8 [KO:K03355]
4339716  anaphase-promoting complex subunit 10 [KO:K03357]
4344013  anaphase-promoting complex subunit 13 isoform X1 [KO:K12456]
Reference
PMID:16922370
  Authors
Kamura T.
  Title
[Cullin-based E3 family]
  Journal
Tanpakushitsu Kakusan Koso 51:1167-72 (2006)
Reference
PMID:16922408
  Authors
Matsuda N.
  Title
[Overview: hereditary disorders caused by dysfunction of ubiquitylation]
  Journal
Tanpakushitsu Kakusan Koso 51:1402-7 (2006)
Reference
PMID:16922367
  Authors
Tokunaga F.
  Title
[E2 ubiquitin-conjugating enzymes: structures and functions]
  Journal
Tanpakushitsu Kakusan Koso 51:1150-6 (2006)
Reference
PMID:16816840
  Authors
Nalepa G, Rolfe M, Harper JW.
  Title
Drug discovery in the ubiquitin-proteasome system.
  Journal
Nat Rev Drug Discov 5:596-613 (2006)
DOI:10.1038/nrd2056
Reference
PMID:16405856
  Authors
Hsu YJ, Goodman SR.
  Title
Spectrin and ubiquitination: a review.
  Journal
Cell Mol Biol (Noisy-le-grand) Suppl 51:OL801-7 (2005)
Reference
PMID:12944364
  Authors
Hatakeyama S, Nakayama KI.
  Title
Ubiquitylation as a quality control system for intracellular proteins.
  Journal
J Biochem 134:1-8 (2003)
DOI:10.1093/jb/mvg106
Reference
PMID:17588513
  Authors
Lee J, Zhou P.
  Title
DCAFs, the missing link of the CUL4-DDB1 ubiquitin ligase.
  Journal
Mol Cell 26:775-80 (2007)
DOI:10.1016/j.molcel.2007.06.001
Related
pathway
osa03050  Proteasome
KO pathway
ko04120   
LinkDB

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