KEGG   PATHWAY: char04120
Entry
char04120                   Pathway                                
Name
Ubiquitin mediated proteolysis - Clupea harengus (Atlantic herring)
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
char04120  Ubiquitin mediated proteolysis
char04120

Other DBs
GO: 0016567
Organism
Clupea harengus (Atlantic herring) [GN:char]
Gene
105888480  [KO:K10576] [EC:2.3.2.23]
105888886  ubox5; RING finger protein 37 [KO:K10600]
105888916  rhobtb2b; rho-related BTB domain-containing protein 2 [KO:K07868]
105889045  traf6; TNF receptor-associated factor 6 [KO:K03175] [EC:2.3.2.27]
105889104  [KO:K10591] [EC:2.3.2.26]
105889348  ube3c; ubiquitin-protein ligase E3C isoform X1 [KO:K10589] [EC:2.3.2.26]
105889476  [KO:K02207] [EC:2.3.2.23]
105890005  rhobtb4; rho related BTB domain containing 4 isoform X2 [KO:K07868]
105890030  anapc5; anaphase-promoting complex subunit 5 [KO:K03352]
105890044  ppil2; RING-type E3 ubiquitin-protein ligase PPIL2 [KO:K10598] [EC:5.2.1.8]
105890093  ubc; polyubiquitin-C [KO:K08770]
105890115  ube2g1b; ubiquitin-conjugating enzyme E2G 1b [KO:K10575] [EC:2.3.2.23]
105890219  ube2wb; probable ubiquitin-conjugating enzyme E2 W-B [KO:K10688] [EC:2.3.2.23 2.3.2.25]
105890220  eloca; elongin C paralog a [KO:K03872]
105890522  trim32; E3 ubiquitin-protein ligase TRIM32 [KO:K10607] [EC:2.3.2.27]
105890539  anapc2; anaphase-promoting complex subunit 2 [KO:K03349]
105890653  uba1; ubiquitin-like modifier-activating enzyme 1 isoform X1 [KO:K03178] [EC:6.2.1.45]
105890774  [KO:K10577]
105890788  cdc27; cell division cycle protein 27 homolog isoform X1 [KO:K03350]
105890926  rps27a; ubiquitin-40S ribosomal protein S27a [KO:K02977]
105890938  herc4; probable E3 ubiquitin-protein ligase HERC4 isoform X1 [KO:K10615] [EC:2.3.2.26]
105891095  ddb1; DNA damage-binding protein 1 [KO:K10610]
105891213  ube2d1b; ubiquitin-conjugating enzyme E2 D1b [KO:K06689] [EC:2.3.2.23]
105891345  fzr1b; fizzy-related protein homolog isoform X1 [KO:K03364]
105891598  [KO:K10575] [EC:2.3.2.23]
105891610  anapc7; anaphase-promoting complex subunit 7 [KO:K03354]
105891874  smurf2; E3 ubiquitin-protein ligase SMURF2 isoform X1 [KO:K04678] [EC:2.3.2.26]
105892074  ube2ql1; ubiquitin-conjugating enzyme E2Q-like protein 1 [KO:K10582] [EC:2.3.2.23]
105892135  det1; DET1 homolog [KO:K10571]
105892299  anapc11; anaphase-promoting complex subunit 11 [KO:K03358]
105892449  pias1b; E3 SUMO-protein ligase PIAS1 isoform X2 [KO:K04706] [EC:2.3.2.-]
105892474  mdm2; E3 ubiquitin-protein ligase Mdm2 isoform X2 [KO:K06643] [EC:2.3.2.27]
105892539  [KO:K10582] [EC:2.3.2.23]
105892551  cdc23; cell division cycle protein 23 homolog [KO:K03355]
105892596  herc3; probable E3 ubiquitin-protein ligase HERC3 [KO:K10614] [EC:2.3.2.26]
105893084  [KO:K04649] [EC:2.3.2.23]
105893085  fbxw11a; F-box and WD repeat domain-containing 11-A isoform X2 [KO:K03362]
105893211  ube2b; ubiquitin-conjugating enzyme E2 B [KO:K10574] [EC:2.3.2.23]
105893238  skp1; S-phase kinase-associated protein 1 [KO:K03094]
105893344  skp2; S-phase kinase-associated protein 2 [KO:K03875]
105893444  fancl; E3 ubiquitin-protein ligase FANCL [KO:K10606] [EC:2.3.2.27]
105893752  ube4a; ubiquitin conjugation factor E4 A [KO:K10596] [EC:2.3.2.27]
105894046  [KO:K03873]
105894174  [KO:K10291]
105894189  [KO:K10260]
105894653  map3k1; LOW QUALITY PROTEIN: mitogen-activated protein kinase kinase kinase 1 [KO:K04416] [EC:2.7.11.25]
105894734  ubr5; E3 ubiquitin-protein ligase UBR5 isoform X1 [KO:K10593] [EC:2.3.2.26]
105894863  ube2j1; ubiquitin-conjugating enzyme E2 J1 [KO:K10578] [EC:2.3.2.23]
105895058  ube2s; ubiquitin-conjugating enzyme E2 S [KO:K10583] [EC:2.3.2.23]
105895139  herc2; E3 ubiquitin-protein ligase HERC2 isoform X1 [KO:K10595] [EC:2.3.2.26]
105895225  ube3a; ubiquitin-protein ligase E3A [KO:K10587] [EC:2.3.2.26]
105895262  anapc4; anaphase-promoting complex subunit 4 isoform X2 [KO:K03351]
105895386  birc2; baculoviral IAP repeat-containing protein 2 isoform X1 [KO:K16060]
105895587  wwp2; NEDD4-like E3 ubiquitin-protein ligase WWP2 isoform X1 [KO:K05630] [EC:2.3.2.26]
105895846  uba7; ubiquitin-like modifier-activating enzyme 1 [KO:K03178] [EC:6.2.1.45]
105895958  fbxo2; F-box only protein 2 isoform X1 [KO:K10099]
105895994  cul3b; cullin-3b [KO:K03869]
105896311  cul2; cullin-2 [KO:K03870]
105896653  ube2f; NEDD8-conjugating enzyme UBE2F [KO:K10687] [EC:2.3.2.34]
105896974  [KO:K06689] [EC:2.3.2.23]
105897247  [KO:K05633] [EC:2.3.2.26]
105897329  huwe1; E3 ubiquitin-protein ligase HUWE1 [KO:K10592] [EC:2.3.2.26]
105897454  ube2d2; ubiquitin-conjugating enzyme E2 D2 [KO:K06689] [EC:2.3.2.23]
105897526  ube2h; ubiquitin-conjugating enzyme E2 H [KO:K10576] [EC:2.3.2.23]
105897570  ube2nb; ubiquitin-conjugating enzyme E2Nb isoform X1 [KO:K10580] [EC:2.3.2.23]
105897680  elob; elongin-B [KO:K03873]
105897902  vhl; von Hippel-Lindau disease tumor suppressor [KO:K03871]
105897905  ube2c; ubiquitin-conjugating enzyme E2 C [KO:K06688] [EC:2.3.2.23]
105897984  rbx1; E3 ubiquitin-protein ligase RBX1 [KO:K03868] [EC:2.3.2.32]
105898048  ube2na; ubiquitin-conjugating enzyme E2Na [KO:K10580] [EC:2.3.2.23]
105898087  mid1; E3 ubiquitin-protein ligase Midline-1 isoform X1 [KO:K08285] [EC:2.3.2.27]
105898140  [KO:K04554] [EC:2.3.2.23]
105899009  ube4b; ubiquitin conjugation factor E4 B isoform X1 [KO:K10597] [EC:2.3.2.27]
105899263  cop1; E3 ubiquitin-protein ligase COP1 [KO:K10143] [EC:2.3.2.27]
105899280  socs3a; suppressor of cytokine signaling 3a [KO:K04696]
105899911  smurf1; E3 ubiquitin-protein ligase SMURF1 isoform X1 [KO:K04678] [EC:2.3.2.26]
105900188  [KO:K04678] [EC:2.3.2.26]
105900194  [KO:K10581] [EC:2.3.2.24]
105900538  elocb; elongin C paralog b [KO:K03872]
105901175  pias2; E3 SUMO-protein ligase PIAS2 isoform X3 [KO:K16063] [EC:2.3.2.-]
105901895  itcha; itchy E3 ubiquitin protein ligase a isoform X3 [KO:K05632] [EC:2.3.2.26]
105902079  cblb; E3 ubiquitin-protein ligase CBL-B isoform X1 [KO:K22517] [EC:2.3.2.27]
105902325  anapc1; anaphase-promoting complex subunit 1 isoform X1 [KO:K03348]
105902753  ube2d4; ubiquitin-conjugating enzyme E2 D4 [KO:K06689] [EC:2.3.2.23]
105902786  [KO:K07868]
105902798  rnf7; RING-box protein 2 [KO:K10611]
105902806  trip12; E3 ubiquitin-protein ligase TRIP12 isoform X1 [KO:K10590] [EC:2.3.2.26]
105902831  [KO:K08285] [EC:2.3.2.27]
105902895  rchy1; RING finger and CHY zinc finger domain-containing protein 1 [KO:K10144] [EC:2.3.2.27]
105903252  sae1; SUMO-activating enzyme subunit 1 [KO:K10684] [EC:6.2.1.45]
105903323  stub1; E3 ubiquitin-protein ligase CHIP [KO:K09561] [EC:2.3.2.27]
105903365  anapc16; anaphase-promoting complex subunit 16 [KO:K25229]
105903697  [KO:K20217] [EC:2.3.2.23]
105903698  ube2e1; ubiquitin-conjugating enzyme E2 E1 [KO:K20217] [EC:2.3.2.23]
105903979  ube2kb; ubiquitin-conjugating enzyme E2Kb (UBC1 homolog, yeast) [KO:K04649] [EC:2.3.2.23]
105903991  fbxw7; F-box/WD repeat-containing protein 7 isoform X4 [KO:K10260]
105904013  uba6; LOW QUALITY PROTEIN: ubiquitin-like modifier-activating enzyme 6 [KO:K10699] [EC:6.2.1.45]
105904033  fzr1a; fizzy-related protein homolog [KO:K03364]
105904305  [KO:K10291]
105904512  siah1; E3 ubiquitin-protein ligase Siah1 isoform X1 [KO:K04506] [EC:2.3.2.27]
105904883  anapc10; anaphase-promoting complex subunit 10 [KO:K03357]
105905146  uba2; SUMO-activating enzyme subunit 2 isoform X1 [KO:K10685] [EC:6.2.1.45]
105905242  cul1b; cullin-1b [KO:K03347]
105905916  ube2e3; ubiquitin-conjugating enzyme E2 E3 [KO:K20217] [EC:2.3.2.23]
105905951  cdc16; cell division cycle protein 16 homolog [KO:K03353]
105905987  [KO:K03362]
105906232  ube2q1; ubiquitin-conjugating enzyme E2 Q1 isoform X2 [KO:K10582] [EC:2.3.2.23]
105906472  pias1a; E3 SUMO-protein ligase PIAS1 [KO:K04706] [EC:2.3.2.-]
105906787  [KO:K10686] [EC:6.2.1.64]
105907002  keap1a; kelch-like ECH-associated protein 1A [KO:K10456]
105907013  pias4b; E3 SUMO-protein ligase PIAS4b isoform X2 [KO:K16065] [EC:2.3.2.27]
105907046  cul1a; cullin-1a [KO:K03347]
105907388  [KO:K10614] [EC:2.3.2.26]
105907823  cul5a; cullin-5a isoform X1 [KO:K10612]
105907877  mgrn1b; E3 ubiquitin-protein ligase MGRN1b isoform X3 [KO:K10604] [EC:2.3.2.27]
105908579  socs3b; suppressor of cytokine signaling 3b [KO:K04696]
105908765  prpf19; pre-mRNA-processing factor 19 [KO:K10599] [EC:2.3.2.27]
105909627  [KO:K08770]
105909781  trim37; E3 ubiquitin-protein ligase TRIM37 isoform X1 [KO:K10608] [EC:2.3.2.27]
105910173  keap1b; kelch-like ECH-associated protein 1B [KO:K10456]
105910232  ube2ib; SUMO-conjugating enzyme UBC9-A [KO:K10577]
105910252  mgrn1a; probable E3 ubiquitin-protein ligase MGRN1 isoform X1 [KO:K10604] [EC:2.3.2.27]
105910511  rhobtb1; rho-related BTB domain-containing protein 1 isoform X1 [KO:K07868]
105910608  cblc; E3 ubiquitin-protein ligase CBL-C isoform X1 [KO:K22518] [EC:2.3.2.27]
105911050  anapc13; anaphase-promoting complex subunit 13 [KO:K12456]
105911439  [KO:K10602] [EC:2.3.2.27]
105911480  [KO:K10594] [EC:2.3.2.26]
105911495  nedd4l; E3 ubiquitin-protein ligase NEDD4-like isoform X1 [KO:K13305] [EC:2.3.2.26]
105911599  birc6; baculoviral IAP repeat-containing protein 6 [KO:K10586] [EC:2.3.2.23]
105912026  syvn1; E3 ubiquitin-protein ligase synoviolin isoform X1 [KO:K10601] [EC:2.3.2.27]
105912101  ube2g2; ubiquitin-conjugating enzyme E2 G2 [KO:K04555] [EC:2.3.2.23]
105912256  uba3; NEDD8-activating enzyme E1 catalytic subunit isoform X4 [KO:K10686] [EC:6.2.1.64]
105912317  prkn; E3 ubiquitin-protein ligase parkin isoform X1 [KO:K04556] [EC:2.3.2.31]
105912373  [KO:K06689] [EC:2.3.2.23]
105912483  klhl13; kelch-like protein 13 isoform X1 [KO:K10447]
105912495  ube2a; ubiquitin-conjugating enzyme E2 A [KO:K10573] [EC:2.3.2.23]
105912626  [KO:K04725] [EC:2.3.2.27]
105912726  ube2j2; ubiquitin-conjugating enzyme E2 J2 [KO:K04554] [EC:2.3.2.23]
105912744  birc7; baculoviral IAP repeat-containing protein 7 isoform X1 [KO:K16061]
105912771  cbl; E3 ubiquitin-protein ligase CBL isoform X1 [KO:K04707] [EC:2.3.2.27]
105912861  ube2z; ubiquitin-conjugating enzyme E2 Z [KO:K10585] [EC:2.3.2.23]
105912995  [KO:K03094]
105913025  anapc15; anaphase-promoting complex subunit 15 [KO:K25228]
105913033  ube2m; NEDD8-conjugating enzyme Ubc12 [KO:K10579] [EC:2.3.2.34]
105913099  cul4b; LOW QUALITY PROTEIN: cullin-4B [KO:K10609]
105913235  si:rp71-68n21.9; kelch-like protein 9 [KO:K10447]
105913296  ube2al; ubiquitin conjugating enzyme E2 A, like [KO:K10573] [EC:2.3.2.23]
105913349  [KO:K03175] [EC:2.3.2.27]
116219736  [KO:K10581] [EC:2.3.2.24]
122129114  cdc20; cell division cycle protein 20 homolog [KO:K03363]
122129433  [KO:K04678] [EC:2.3.2.26]
122129447  [KO:K02927]
122129540  cdc26; anaphase-promoting complex subunit CDC26 [KO:K03359]
122130374  [KO:K02927]
122130689  [KO:K10587] [EC:2.3.2.26]
122130746  [KO:K20217] [EC:2.3.2.23]
122130749  [KO:K20217] [EC:2.3.2.23]
122130883  [KO:K04552] [EC:2.3.2.23]
122130959  fbxw8; F-box/WD repeat-containing protein 8 [KO:K10264]
122130968  [KO:K03364]
122130985  ube2g1a; ubiquitin-conjugating enzyme E2 G1a [KO:K10575] [EC:2.3.2.23]
122131190  ube3b; ubiquitin-protein ligase E3B [KO:K10588] [EC:2.3.2.26]
122131631  socs1a; suppressor of cytokine signaling 1a [KO:K04694]
122131682  [KO:K06689] [EC:2.3.2.23]
122131763  ddb2; DNA damage-binding protein 2 [KO:K10140]
122131813  ube2r2; ubiquitin-conjugating enzyme E2 R2 [KO:K02207] [EC:2.3.2.23]
122131857  ercc8; DNA excision repair protein ERCC-8 [KO:K10570]
122131939  [KO:K04552] [EC:2.3.2.23]
122131969  [KO:K03869]
122132002  pias4a; E3 SUMO-protein ligase PIAS4-A [KO:K16065] [EC:2.3.2.27]
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
char03050  Proteasome
KO pathway
ko04120   

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