KEGG   PATHWAY: clum04120
Entry
clum04120                   Pathway                                
Name
Ubiquitin mediated proteolysis - Cyclopterus lumpus (lumpfish)
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
clum04120  Ubiquitin mediated proteolysis
clum04120

Other DBs
GO: 0016567
Organism
Cyclopterus lumpus (lumpfish) [GN:clum]
Gene
117725901  ube2h; ubiquitin-conjugating enzyme E2 H isoform X1 [KO:K10576] [EC:2.3.2.23]
117725914  ube2nb; ubiquitin-conjugating enzyme E2Nb [KO:K10580] [EC:2.3.2.23]
117726546  mdm2; E3 ubiquitin-protein ligase Mdm2 [KO:K06643] [EC:2.3.2.27]
117727802  ube2j1; ubiquitin-conjugating enzyme E2 J1 [KO:K10578] [EC:2.3.2.23]
117728036  ubr5; E3 ubiquitin-protein ligase UBR5 isoform X1 [KO:K10593] [EC:2.3.2.26]
117728084  [KO:K20217] [EC:2.3.2.23]
117728085  ube2e2; ubiquitin-conjugating enzyme E2 E2 isoform X1 [KO:K20217] [EC:2.3.2.23]
117728109  [KO:K10612]
117728159  ube2kb; ubiquitin-conjugating enzyme E2Kb (UBC1 homolog, yeast) [KO:K04649] [EC:2.3.2.23]
117728310  herc3; probable E3 ubiquitin-protein ligase HERC3 isoform X1 [KO:K10614] [EC:2.3.2.26]
117728348  sae1; SUMO-activating enzyme subunit 1 [KO:K10684] [EC:6.2.1.45]
117728631  [KO:K04706] [EC:2.3.2.-]
117728807  herc1; probable E3 ubiquitin-protein ligase HERC1 isoform X1 [KO:K10594] [EC:2.3.2.26]
117729191  cdc34a; cell division cycle 34 homolog (S. cerevisiae) a [KO:K02207] [EC:2.3.2.23]
117729360  [KO:K02927]
117729751  pias4a; E3 SUMO-protein ligase PIAS4-A [KO:K16065] [EC:2.3.2.27]
117729997  herc2; E3 ubiquitin-protein ligase HERC2 isoform X1 [KO:K10595] [EC:2.3.2.26]
117729998  ube3a; ubiquitin-protein ligase E3A [KO:K10587] [EC:2.3.2.26]
117730066  anapc4; anaphase-promoting complex subunit 4 [KO:K03351]
117730094  [KO:K03364]
117730254  itcha; itchy E3 ubiquitin protein ligase a [KO:K05632] [EC:2.3.2.26]
117730300  [KO:K04678] [EC:2.3.2.26]
117730442  ube2c; ubiquitin-conjugating enzyme E2 C [KO:K06688] [EC:2.3.2.23]
117730458  uba7; ubiquitin-like modifier-activating enzyme 1 [KO:K03178] [EC:6.2.1.45]
117730542  ube2r2; ubiquitin-conjugating enzyme E2 R2 [KO:K02207] [EC:2.3.2.23]
117730578  keap1b; kelch-like ECH-associated protein 1B [KO:K10456]
117731257  ube2j2; ubiquitin-conjugating enzyme E2 J2 [KO:K04554] [EC:2.3.2.23]
117731263  fbxo2; F-box only protein 2 [KO:K10099]
117731291  vhl; von Hippel-Lindau disease tumor suppressor isoform X1 [KO:K03871]
117731384  uba3; NEDD8-activating enzyme E1 catalytic subunit isoform X1 [KO:K10686] [EC:6.2.1.64]
117731675  ube2o; (E3-independent) E2 ubiquitin-conjugating enzyme UBE2O [KO:K10581] [EC:2.3.2.24]
117731698  wwp2; NEDD4-like E3 ubiquitin-protein ligase WWP2 isoform X1 [KO:K05630] [EC:2.3.2.26]
117732099  [KO:K10582] [EC:2.3.2.23]
117732148  siah1; E3 ubiquitin-protein ligase Siah1 [KO:K04506] [EC:2.3.2.27]
117732187  [KO:K10576] [EC:2.3.2.23]
117732262  anapc13; anaphase-promoting complex subunit 13 [KO:K12456]
117732268  ddb2; DNA damage-binding protein 2 isoform X1 [KO:K10140]
117732313  uba2; SUMO-activating enzyme subunit 2 [KO:K10685] [EC:6.2.1.45]
117732385  pias1b; E3 SUMO-protein ligase PIAS1 isoform X1 [KO:K04706] [EC:2.3.2.-]
117732541  ube2na; ubiquitin-conjugating enzyme E2Na [KO:K10580] [EC:2.3.2.23]
117732785  det1; DET1 homolog [KO:K10571]
117732800  [KO:K10614] [EC:2.3.2.26]
117733265  itchb; itchy E3 ubiquitin protein ligase b [KO:K05632] [EC:2.3.2.26]
117733286  [KO:K10686] [EC:6.2.1.64]
117733306  ube4b; ubiquitin conjugation factor E4 B isoform X1 [KO:K10597] [EC:2.3.2.27]
117733430  uba1; ubiquitin-like modifier-activating enzyme 1 [KO:K03178] [EC:6.2.1.45]
117733590  birc7; baculoviral IAP repeat-containing protein 7 [KO:K16061]
117733675  huwe1; E3 ubiquitin-protein ligase HUWE1 isoform X1 [KO:K10592] [EC:2.3.2.26]
117734497  mgrn1b; E3 ubiquitin-protein ligase MGRN1b [KO:K10604] [EC:2.3.2.27]
117734668  ube2m; NEDD8-conjugating enzyme Ubc12 [KO:K10579] [EC:2.3.2.34]
117734827  smurf1; E3 ubiquitin-protein ligase SMURF1 isoform X1 [KO:K04678] [EC:2.3.2.26]
117734887  socs3a; LOW QUALITY PROTEIN: suppressor of cytokine signaling 3a [KO:K04696]
117734889  ube2z; ubiquitin-conjugating enzyme E2 Z [KO:K10585] [EC:2.3.2.23]
117734897  elob; elongin-B [KO:K03873]
117735153  [KO:K10577]
117735190  cdc27; cell division cycle protein 27 homolog [KO:K03350]
117735315  smurf2; E3 ubiquitin-protein ligase SMURF2 isoform X1 [KO:K04678] [EC:2.3.2.26]
117735544  anapc2; anaphase-promoting complex subunit 2 [KO:K03349]
117735604  socs1a; LOW QUALITY PROTEIN: suppressor of cytokine signaling 1a [KO:K04694]
117735638  rbx1; E3 ubiquitin-protein ligase RBX1 [KO:K03868] [EC:2.3.2.32]
117735665  [KO:K09561] [EC:2.3.2.27]
117735841  fbxw7; F-box/WD repeat-containing protein 7 isoform X1 [KO:K10260]
117735855  ube3b; ubiquitin-protein ligase E3B [KO:K10588] [EC:2.3.2.26]
117735930  rchy1; RING finger and CHY zinc finger domain-containing protein 1 [KO:K10144] [EC:2.3.2.27]
117735994  rhobtb4; rho related BTB domain containing 4 isoform X1 [KO:K07868]
117736249  ube2d4; ubiquitin-conjugating enzyme E2 D4 [KO:K06689] [EC:2.3.2.23]
117736282  fbxo4; F-box only protein 4 [KO:K10291]
117736312  [KO:K07868]
117736482  anapc7; anaphase-promoting complex subunit 7 isoform X1 [KO:K03354]
117736484  [KO:K10575] [EC:2.3.2.23]
117736528  [KO:K04552] [EC:2.3.2.23]
117736568  ercc8; DNA excision repair protein ERCC-8 [KO:K10570]
117736595  ppil2; RING-type E3 ubiquitin-protein ligase PPIL2 [KO:K10598] [EC:5.2.1.8]
117736612  [KO:K03363]
117736689  pias2; LOW QUALITY PROTEIN: E3 SUMO-protein ligase PIAS2 [KO:K16063] [EC:2.3.2.-]
117736746  ubox5; RING finger protein 37 [KO:K10600]
117736825  fbxw8; F-box/WD repeat-containing protein 8 [KO:K10264]
117737079  cul4b; LOW QUALITY PROTEIN: cullin-4B [KO:K10609]
117737091  xiap; E3 ubiquitin-protein ligase XIAP isoform X1 [KO:K04725] [EC:2.3.2.27]
117737278  ube2a; ubiquitin-conjugating enzyme E2 A [KO:K10573] [EC:2.3.2.23]
117737302  fbxw11a; F-box/WD repeat-containing protein 11a isoform X1 [KO:K03362]
117737470  syvn1; E3 ubiquitin-protein ligase synoviolin isoform X1 [KO:K10601] [EC:2.3.2.27]
117737780  ube2ka; ubiquitin-conjugating enzyme E2Ka (UBC1 homolog, yeast) isoform X1 [KO:K04649] [EC:2.3.2.23]
117737795  [KO:K06689] [EC:2.3.2.23]
117737850  prpf19; pre-mRNA-processing factor 19 [KO:K10599] [EC:2.3.2.27]
117738021  ube2d2; ubiquitin-conjugating enzyme E2 D2 isoform X1 [KO:K06689] [EC:2.3.2.23]
117738860  socs1b; suppressor of cytokine signaling 1b [KO:K04694]
117739129  ube2e1; ubiquitin-conjugating enzyme E2 E1 isoform X1 [KO:K20217] [EC:2.3.2.23]
117739130  [KO:K20217] [EC:2.3.2.23]
117739405  ube2ql1; ubiquitin-conjugating enzyme E2Q-like protein 1 [KO:K10582] [EC:2.3.2.23]
117740063  ube2l3a; ubiquitin-conjugating enzyme E2 L3a [KO:K04552] [EC:2.3.2.23]
117740138  [KO:K10575] [EC:2.3.2.23]
117740150  [KO:K10594] [EC:2.3.2.26]
117740236  cdc26; anaphase-promoting complex subunit CDC26 [KO:K03359]
117740636  trim32; E3 ubiquitin-protein ligase TRIM32 [KO:K10607] [EC:2.3.2.27]
117740814  nedd4l; E3 ubiquitin-protein ligase NEDD4-like isoform X1 [KO:K13305] [EC:2.3.2.26]
117740939  skp2; S-phase kinase-associated protein 2 isoform X1 [KO:K03875]
117741152  trip12; E3 ubiquitin-protein ligase TRIP12 [KO:K10590] [EC:2.3.2.26]
117741363  ube4a; ubiquitin conjugation factor E4 A isoform X1 [KO:K10596] [EC:2.3.2.27]
117741415  cul3b; cullin-3b isoform X1 [KO:K03869]
117741471  anapc15; anaphase-promoting complex subunit 15 [KO:K25228]
117741864  cbl; E3 ubiquitin-protein ligase CBL isoform X1 [KO:K04707] [EC:2.3.2.27]
117741960  anapc11; anaphase-promoting complex subunit 11 [KO:K03358]
117742422  cblb; E3 ubiquitin-protein ligase CBL-B-B isoform X1 [KO:K22517] [EC:2.3.2.27]
117742440  klhl13; kelch-like protein 13 isoform X1 [KO:K10447]
117742533  cdc23; cell division cycle protein 23 homolog [KO:K03355]
117742579  ube2b; ubiquitin-conjugating enzyme E2 B isoform X1 [KO:K10574] [EC:2.3.2.23]
117742616  trim37; E3 ubiquitin-protein ligase TRIM37 isoform X1 [KO:K10608] [EC:2.3.2.27]
117742971  [KO:K10612]
117743018  ube2g1a; ubiquitin-conjugating enzyme E2 G1a [KO:K10575] [EC:2.3.2.23]
117743043  skp1; S-phase kinase-associated protein 1 [KO:K03094]
117743080  [KO:K04707] [EC:2.3.2.27]
117743263  birc2; baculoviral IAP repeat-containing protein 2 isoform X1 [KO:K16060]
117743657  [KO:K04556] [EC:2.3.2.31]
117743670  fancl; E3 ubiquitin-protein ligase FANCL isoform X1 [KO:K10606] [EC:2.3.2.27]
117743726  rps27a; ubiquitin-40S ribosomal protein S27a [KO:K02977]
117743746  anapc1; anaphase-promoting complex subunit 1 isoform X1 [KO:K03348]
117743878  herc4; probable E3 ubiquitin-protein ligase HERC4 isoform X1 [KO:K10615] [EC:2.3.2.26]
117743977  birc6; baculoviral IAP repeat-containing protein 6 isoform X1 [KO:K10586] [EC:2.3.2.23]
117744143  [KO:K08285] [EC:2.3.2.27]
117744402  [KO:K04556] [EC:2.3.2.31]
117744406  [KO:K06689] [EC:2.3.2.23]
117745189  cblc; E3 ubiquitin-protein ligase CBL-C isoform X1 [KO:K22518] [EC:2.3.2.27]
117745251  ube2s; ubiquitin-conjugating enzyme E2 S [KO:K10583] [EC:2.3.2.23]
117745555  [KO:K10602] [EC:2.3.2.27]
117745958  [KO:K03869]
117746122  [KO:K02207] [EC:2.3.2.23]
117746144  [KO:K10587] [EC:2.3.2.26]
117746305  aire; autoimmune regulator [KO:K10603]
117746332  [KO:K02927]
117746732  [KO:K03364]
117746820  cop1; E3 ubiquitin-protein ligase COP1 isoform X1 [KO:K10143] [EC:2.3.2.27]
117746886  cdc20; cell division cycle protein 20 homolog [KO:K03363]
117746935  fzr1b; fizzy-related protein homolog isoform X1 [KO:K03364]
117747453  [KO:K04551]
117747461  uba6; ubiquitin-like modifier-activating enzyme 6 [KO:K10699] [EC:6.2.1.45]
117747511  [KO:K10260]
117747594  anapc10; anaphase-promoting complex subunit 10 [KO:K03357]
117747654  cul4a; cullin-4A isoform X1 [KO:K10609]
117747975  nedd4a; E3 ubiquitin-protein ligase NEDD4a [KO:K10591] [EC:2.3.2.26]
117748516  anapc16; anaphase-promoting complex subunit 16 isoform X1 [KO:K25229]
117748519  [KO:K10605] [EC:2.3.2.27]
117748644  [KO:K04696]
117748719  ube2ib; SUMO-conjugating enzyme UBC9-A [KO:K10577]
117748890  ube2d1b; ubiquitin-conjugating enzyme E2 D1b [KO:K06689] [EC:2.3.2.23]
117749041  [KO:K03873]
117749044  stub1; E3 ubiquitin-protein ligase CHIP [KO:K09561] [EC:2.3.2.27]
117749301  [KO:K05633] [EC:2.3.2.26]
117749364  [KO:K10582] [EC:2.3.2.23]
117749417  flj11011l; LOW QUALITY PROTEIN: probable ubiquitin-conjugating enzyme E2 W-B [KO:K10688] [EC:2.3.2.23 2.3.2.25]
117749444  ube3c; ubiquitin-protein ligase E3C [KO:K10589] [EC:2.3.2.26]
117749526  traf6; TNF receptor-associated factor 6 [KO:K03175] [EC:2.3.2.27]
117749585  cul2; LOW QUALITY PROTEIN: cullin-2 [KO:K03870]
117749818  eloca; elongin C paralog a [KO:K03872]
117749841  [KO:K03347]
117750085  si:rp71-68n21.9; kelch-like protein 9 isoform X1 [KO:K10447]
117750101  ube2al; ubiquitin conjugating enzyme E2 A, like [KO:K10573] [EC:2.3.2.23]
117750638  ddb1; DNA damage-binding protein 1 [KO:K10610]
117750802  ube2g2; ubiquitin-conjugating enzyme E2 G2 isoform X1 [KO:K04555] [EC:2.3.2.23]
117750994  cdc16; cell division cycle protein 16 homolog [KO:K03353]
117751031  mid1; E3 ubiquitin-protein ligase Midline-1 isoform X1 [KO:K08285] [EC:2.3.2.27]
117751184  keap1a; kelch-like ECH-associated protein 1A [KO:K10456]
117751368  [KO:K06689] [EC:2.3.2.23]
Reference
  Authors
Kamura T.
  Title
[Cullin-based E3 family]
  Journal
Tanpakushitsu Kakusan Koso 51:1167-72 (2006)
Reference
  Authors
Matsuda N.
  Title
[Overview: hereditary disorders caused by dysfunction of ubiquitylation]
  Journal
Tanpakushitsu Kakusan Koso 51:1402-7 (2006)
Reference
  Authors
Tokunaga F.
  Title
[E2 ubiquitin-conjugating enzymes: structures and functions]
  Journal
Tanpakushitsu Kakusan Koso 51:1150-6 (2006)
Reference
  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
  Authors
Hsu YJ, Goodman SR.
  Title
Spectrin and ubiquitination: a review.
  Journal
Cell Mol Biol (Noisy-le-grand) Suppl 51:OL801-7 (2005)
Reference
  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
  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
clum03050  Proteasome
KO pathway
ko04120   

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