KEGG   PATHWAY: tfd04120
Entry
tfd04120                    Pathway                                
Name
Ubiquitin mediated proteolysis - Tachysurus fulvidraco (yellow catfish)
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
tfd04120  Ubiquitin mediated proteolysis
tfd04120

Other DBs
GO: 0016567
Organism
Tachysurus fulvidraco (yellow catfish) [GN:tfd]
Gene
113634170  ubiquitin [KO:K04551]
125140277  ubb; polyubiquitin-B isoform X1 [KO:K08770]
113645252  uba52; ubiquitin-60S ribosomal protein L40 [KO:K02927]
113650052  rps27a; ubiquitin-40S ribosomal protein S27a [KO:K02977]
113658135  uba1; ubiquitin-like modifier-activating enzyme 1 [KO:K03178] [EC:6.2.1.45]
113642695  uba7; ubiquitin-like modifier-activating enzyme 1 isoform X2 [KO:K03178] [EC:6.2.1.45]
113643486  sae1; SUMO-activating enzyme subunit 1 [KO:K10684] [EC:6.2.1.45]
113656592  uba2; SUMO-activating enzyme subunit 2 [KO:K10685] [EC:6.2.1.45]
113641820  uba3; NEDD8-activating enzyme E1 catalytic subunit isoform X2 [KO:K10686] [EC:6.2.1.64]
113660683  uba6; ubiquitin-like modifier-activating enzyme 6 isoform X1 [KO:K10699] [EC:6.2.1.45]
113661262  ube2al; ubiquitin conjugating enzyme E2 A, like isoform X1 [KO:K10573] [EC:2.3.2.23]
113635782  ube2a; ubiquitin-conjugating enzyme E2 A [KO:K10573] [EC:2.3.2.23]
113648850  ubiquitin-conjugating enzyme E2 A-like [KO:K10573] [EC:2.3.2.23]
113646555  ubiquitin-conjugating enzyme E2 B isoform X1 [KO:K10574] [EC:2.3.2.23]
113642897  ube2c; ubiquitin-conjugating enzyme E2 C [KO:K06688] [EC:2.3.2.23]
113644977  ube2d3; ubiquitin-conjugating enzyme E2 D3 isoform X1 [KO:K06689] [EC:2.3.2.23]
113637481  ube2d2l; ubiquitin-conjugating enzyme E2D 2 (UBC4/5 homolog, yeast), like [KO:K06689] [EC:2.3.2.23]
113654880  ube2d2; ubiquitin-conjugating enzyme E2 D2 [KO:K06689] [EC:2.3.2.23]
113640537  ube2d1a; ubiquitin-conjugating enzyme E2 D1a [KO:K06689] [EC:2.3.2.23]
113649379  ube2d1b; ubiquitin-conjugating enzyme E2 D1b isoform X2 [KO:K06689] [EC:2.3.2.23]
113645161  ube2d4; ubiquitin-conjugating enzyme E2 D4 [KO:K06689] [EC:2.3.2.23]
113653142  ube2e3; ubiquitin-conjugating enzyme E2 E3 [KO:K20217] [EC:2.3.2.23]
113654677  ube2e1; ubiquitin-conjugating enzyme E2 E1 isoform X2 [KO:K20217] [EC:2.3.2.23]
113654698  ubiquitin-conjugating enzyme E2 E2-like [KO:K20217] [EC:2.3.2.23]
113649771  ube2e2; ubiquitin-conjugating enzyme E2 E2 [KO:K20217] [EC:2.3.2.23]
113649021  ube2f; NEDD8-conjugating enzyme UBE2F isoform X1 [KO:K10687] [EC:2.3.2.34]
113646459  ube2g1b; ubiquitin-conjugating enzyme E2G 1b [KO:K10575] [EC:2.3.2.23]
113655134  ube2g1a; ubiquitin-conjugating enzyme E2 G1a [KO:K10575] [EC:2.3.2.23]
113649241  ube2g2; ubiquitin-conjugating enzyme E2 G2 isoform X1 [KO:K04555] [EC:2.3.2.23]
113663761  ube2h; ubiquitin-conjugating enzyme E2 H [KO:K10576] [EC:2.3.2.23]
113634871  ube2ia; SUMO-conjugating enzyme UBC9-B [KO:K10577]
113652108  ube2ib; SUMO-conjugating enzyme UBC9-A [KO:K10577]
113646251  ube2j1; ubiquitin-conjugating enzyme E2 J1 [KO:K10578] [EC:2.3.2.23]
113661819  ubiquitin-conjugating enzyme E2 J2 [KO:K04554] [EC:2.3.2.23]
113642042  ube2j2; ubiquitin-conjugating enzyme E2 J2 [KO:K04554] [EC:2.3.2.23]
113659196  ube2ka; ubiquitin-conjugating enzyme E2Ka (UBC1 homolog, yeast) isoform X1 [KO:K04649] [EC:2.3.2.23]
113660658  ube2kb; ubiquitin-conjugating enzyme E2Kb (UBC1 homolog, yeast) [KO:K04649] [EC:2.3.2.23]
113653292  ube2l3b; ubiquitin-conjugating enzyme E2 L3b [KO:K04552] [EC:2.3.2.23]
113638488  ube2l3a; ubiquitin-conjugating enzyme E2 L3a [KO:K04552] [EC:2.3.2.23]
113642397  ube2m; NEDD8-conjugating enzyme Ubc12 [KO:K10579] [EC:2.3.2.34]
113652486  ube2na; ubiquitin-conjugating enzyme E2Na [KO:K10580] [EC:2.3.2.23]
113634579  ube2o; (E3-independent) E2 ubiquitin-conjugating enzyme UBE2O [KO:K10581] [EC:2.3.2.24]
113650783  ube2q1; ubiquitin-conjugating enzyme E2 Q1 isoform X1 [KO:K10582] [EC:2.3.2.23]
113634718  ube2ql1; ubiquitin-conjugating enzyme E2Q-like protein 1 isoform X1 [KO:K10582] [EC:2.3.2.23]
113646422  ube2r2; ubiquitin-conjugating enzyme E2 R2 [KO:K02207] [EC:2.3.2.23]
113636957  cdc34b; cell division cycle 34 homolog (S. cerevisiae) b isoform X2 [KO:K02207] [EC:2.3.2.23]
113643702  ube2s; ubiquitin-conjugating enzyme E2 S [KO:K10583] [EC:2.3.2.23]
113636896  ubiquitin-conjugating enzyme E2 W-like [KO:K10688] [EC:2.3.2.23 2.3.2.25]
113636898  ubiquitin-conjugating enzyme E2 W-like [KO:K10688] [EC:2.3.2.23 2.3.2.25]
113636899  ubiquitin-conjugating enzyme E2 W-like isoform X5 [KO:K10688] [EC:2.3.2.23 2.3.2.25]
113636900  ubiquitin-conjugating enzyme E2 W-like isoform X1 [KO:K10688] [EC:2.3.2.23 2.3.2.25]
125139955  LOW QUALITY PROTEIN: ubiquitin-conjugating enzyme E2 W-like [KO:K10688] [EC:2.3.2.23 2.3.2.25]
113640296  ube2wa; probable ubiquitin-conjugating enzyme E2 W-A isoform X1 [KO:K10688] [EC:2.3.2.23 2.3.2.25]
113660621  ube2wb; probable ubiquitin-conjugating enzyme E2 W-B isoform X1 [KO:K10688] [EC:2.3.2.23 2.3.2.25]
113638112  ube2z; ubiquitin-conjugating enzyme E2 Z [KO:K10585] [EC:2.3.2.23]
113662073  birc6; baculoviral IAP repeat-containing protein 6 isoform X1 [KO:K10586] [EC:2.3.2.23]
113660533  ube3a; ubiquitin-protein ligase E3A isoform X1 [KO:K10587] [EC:2.3.2.26]
113656613  ube3b; ubiquitin-protein ligase E3B isoform X1 [KO:K10588] [EC:2.3.2.26]
113648511  ube3c; ubiquitin-protein ligase E3C isoform X1 [KO:K10589] [EC:2.3.2.26]
113650064  ubiquitin-protein ligase E3C-like [KO:K10589] [EC:2.3.2.26]
113639683  smurf2; E3 ubiquitin-protein ligase SMURF2 isoform X1 [KO:K04678] [EC:2.3.2.26]
113660597  smurf1; E3 ubiquitin-protein ligase SMURF1 isoform X1 [KO:K04678] [EC:2.3.2.26]
113634456  E3 ubiquitin-protein ligase SMURF2-like isoform X1 [KO:K04678] [EC:2.3.2.26]
113655279  itchb; itchy E3 ubiquitin protein ligase b isoform X1 [KO:K05632] [EC:2.3.2.26]
113643040  itcha; itchy E3 ubiquitin protein ligase a isoform X1 [KO:K05632] [EC:2.3.2.26]
113644388  NEDD4-like E3 ubiquitin-protein ligase WWP1 isoform X1 [KO:K05633] [EC:2.3.2.26]
113651924  wwp2; NEDD4-like E3 ubiquitin-protein ligase WWP2 isoform X1 [KO:K05630] [EC:2.3.2.26]
113638825  trip12; E3 ubiquitin-protein ligase TRIP12 isoform X1 [KO:K10590] [EC:2.3.2.26]
113643803  nedd4l; E3 ubiquitin-protein ligase NEDD4-like isoform X3 [KO:K13305] [EC:2.3.2.26]
113658239  huwe1; E3 ubiquitin-protein ligase HUWE1 isoform X1 [KO:K10592] [EC:2.3.2.26]
113658388  ubr5; E3 ubiquitin-protein ligase UBR5 isoform X3 [KO:K10593] [EC:2.3.2.26]
113646021  herc1; probable E3 ubiquitin-protein ligase HERC1 isoform X8 [KO:K10594] [EC:2.3.2.26]
113649626  herc2; E3 ubiquitin-protein ligase HERC2 isoform X1 [KO:K10595] [EC:2.3.2.26]
113642390  probable E3 ubiquitin-protein ligase HERC3 isoform X1 [KO:K10614] [EC:2.3.2.26]
113644941  herc4; probable E3 ubiquitin-protein ligase HERC4 isoform X1 [KO:K10615] [EC:2.3.2.26]
113660502  ube4a; ubiquitin conjugation factor E4 A [KO:K10596] [EC:2.3.2.27]
113658196  ube4b; ubiquitin conjugation factor E4 B isoform X1 [KO:K10597] [EC:2.3.2.27]
113649785  stub1; E3 ubiquitin-protein ligase CHIP [KO:K09561] [EC:2.3.2.27]
113653331  ppil2; RING-type E3 ubiquitin-protein ligase PPIL2 [KO:K10598] [EC:5.2.1.8]
113647826  prpf19; pre-mRNA-processing factor 19 [KO:K10599] [EC:2.3.2.27]
113656157  ubox5; RING finger protein 37 isoform X1 [KO:K10600]
113655477  mdm2; E3 ubiquitin-protein ligase Mdm2 [KO:K06643] [EC:2.3.2.27]
113660469  cbl; E3 ubiquitin-protein ligase CBL [KO:K04707] [EC:2.3.2.27]
113645586  cblb; E3 ubiquitin-protein ligase CBL-B [KO:K22517] [EC:2.3.2.27]
113644461  cblc; E3 ubiquitin-protein ligase CBL-C isoform X1 [KO:K22518] [EC:2.3.2.27]
113644945  prkn; E3 ubiquitin-protein ligase parkin isoform X1 [KO:K04556] [EC:2.3.2.31]
113652302  siah1; E3 ubiquitin-protein ligase Siah1 isoform X1 [KO:K04506] [EC:2.3.2.27]
113636662  traf6; TNF receptor-associated factor 6 [KO:K03175] [EC:2.3.2.27]
113639281  map3k1; mitogen-activated protein kinase kinase kinase 1 isoform X1 [KO:K04416] [EC:2.7.11.25]
113634314  cop1; E3 ubiquitin-protein ligase COP1 isoform X1 [KO:K10143] [EC:2.3.2.27]
113656746  rchy1; RING finger and CHY zinc finger domain-containing protein 1 [KO:K10144] [EC:2.3.2.27]
113634941  birc2; baculoviral IAP repeat-containing protein 2 isoform X1 [KO:K16060]
113636052  E3 ubiquitin-protein ligase XIAP [KO:K04725] [EC:2.3.2.27]
113641769  birc7; baculoviral IAP repeat-containing protein 7 isoform X1 [KO:K16061]
113636746  pias1a; E3 SUMO-protein ligase PIAS1 isoform X1 [KO:K04706] [EC:2.3.2.-]
113652419  pias1b; E3 SUMO-protein ligase PIAS1 isoform X1 [KO:K04706] [EC:2.3.2.-]
113653295  pias2; E3 SUMO-protein ligase PIAS2 isoform X1 [KO:K16063] [EC:2.3.2.-]
113657740  pias4a; E3 SUMO-protein ligase PIAS4-A isoform X1 [KO:K16065] [EC:2.3.2.27]
113645142  pias4b; E3 SUMO-protein ligase PIAS4b isoform X1 [KO:K16065] [EC:2.3.2.27]
113635806  syvn1; E3 ubiquitin-protein ligase synoviolin [KO:K10601] [EC:2.3.2.27]
113634372  E3 ubiquitin-protein ligase NHLRC1 [KO:K10602] [EC:2.3.2.27]
113645279  aire; autoimmune regulator [KO:K10603]
113637183  mgrn1a; probable E3 ubiquitin-protein ligase MGRN1 isoform X1 [KO:K10604] [EC:2.3.2.27]
113640466  mgrn1b; E3 ubiquitin-protein ligase MGRN1b isoform X1 [KO:K10604] [EC:2.3.2.27]
113662646  breast cancer type 1 susceptibility protein homolog isoform X1 [KO:K10605] [EC:2.3.2.27]
113636319  fancl; E3 ubiquitin-protein ligase FANCL [KO:K10606] [EC:2.3.2.27]
113648947  E3 ubiquitin-protein ligase Midline-1 isoform X1 [KO:K08285] [EC:2.3.2.27]
113636546  trim32; E3 ubiquitin-protein ligase TRIM32 [KO:K10607] [EC:2.3.2.27]
113650269  trim37; E3 ubiquitin-protein ligase TRIM37 isoform X1 [KO:K10608] [EC:2.3.2.27]
113640136  rbx1; E3 ubiquitin-protein ligase RBX1 [KO:K03868] [EC:2.3.2.32]
113655494  cul1a; cullin-1a [KO:K03347]
113660248  cul1b; cullin-1b isoform X1 [KO:K03347]
113646584  skp1; S-phase kinase-associated protein 1 [KO:K03094]
113654883  fbxw11a; F-box and WD repeat domain-containing 11-A isoform X2 [KO:K03362]
113650300  fbxw11b; F-box and WD repeat domain-containing 11-B isoform X2 [KO:K03362]
113634912  skp2; S-phase kinase-associated protein 2 [KO:K03875]
113650040  fbxw7; F-box/WD repeat-containing protein 7 isoform X1 [KO:K10260]
113657233  fbxo2; F-box only protein 2 [KO:K10099]
113658542  fbxo4; F-box only protein 4 isoform X1 [KO:K10291]
113644634  cul2; cullin-2 [KO:K03870]
113640375  elocb; elongin C paralog b [KO:K03872]
113663214  elob; elongin-B [KO:K03873]
125138703  elongin-B-like [KO:K03873]
113650649  elongin-B [KO:K03873]
113640752  vhl; von Hippel-Lindau disease tumor suppressor [KO:K03871]
113653212  cul3b; cullin-3b isoform X1 [KO:K03869]
113640669  cullin-3-like isoform X1 [KO:K03869]
113634484  keap1b; kelch-like ECH-associated protein 1B [KO:K10456]
113644088  keap1a; kelch-like ECH-associated protein 1A [KO:K10456]
113654456  si:rp71-68n21.9; kelch-like protein 9 isoform X1 [KO:K10447]
113650944  klhl13; kelch-like protein 13 isoform X1 [KO:K10447]
113646481  rho-related BTB domain-containing protein 2 isoform X1 [KO:K07868]
113637620  rhobtb4; rho related BTB domain containing 4 isoform X1 [KO:K07868]
113649364  rhobtb1; rho-related BTB domain-containing protein 1 isoform X1 [KO:K07868]
113635685  cul4b; cullin-4B isoform X1 [KO:K10609]
113648880  cul4a; cullin-4A [KO:K10609]
113641447  ddb1; DNA damage-binding protein 1 [KO:K10610]
113634289  ercc8; DNA excision repair protein ERCC-8 isoform X1 [KO:K10570]
113652304  det1; DET1 homolog [KO:K10571]
113652766  rnf7; RING-box protein 2 [KO:K10611]
113636654  cul5a; cullin-5a isoform X1 [KO:K10612]
113640327  socs1b; suppressor of cytokine signaling 1b [KO:K04694]
113649184  socs1a; suppressor of cytokine signaling 1a [KO:K04694]
113638999  socs3b; suppressor of cytokine signaling 3b [KO:K04696]
113639654  socs3a; suppressor of cytokine signaling 3a [KO:K04696]
113653359  fbxw8; F-box/WD repeat-containing protein 8 isoform X1 [KO:K10264]
125146012  anapc11; anaphase-promoting complex subunit 11 isoform X1 [KO:K03358]
113641653  anapc2; anaphase-promoting complex subunit 2 [KO:K03349]
113651671  cdc20; cell division cycle protein 20 homolog [KO:K03363]
113654651  fzr1a; fizzy/cell division cycle 20 related 1a isoform X1 [KO:K03364]
113649167  fzr1b; fizzy-related protein homolog [KO:K03364]
113645273  fizzy-related protein homolog isoform X1 [KO:K03364]
113655348  anapc1; anaphase-promoting complex subunit 1 isoform X3 [KO:K03348]
113662821  cdc27; cell division cycle protein 27 homolog [KO:K03350]
113653675  anapc4; anaphase-promoting complex subunit 4 isoform X1 [KO:K03351]
113638853  anapc5; anaphase-promoting complex subunit 5 isoform X1 [KO:K03352]
113654621  cdc16; cell division cycle protein 16 homolog isoform X1 [KO:K03353]
113634279  anapc7; anaphase-promoting complex subunit 7 [KO:K03354]
113638611  cdc23; cell division cycle protein 23 homolog isoform X2 [KO:K03355]
113655458  anapc10; anaphase-promoting complex subunit 10 [KO:K03357]
113641385  cdc26; anaphase-promoting complex subunit CDC26 [KO:K03359]
113634972  anapc13; anaphase-promoting complex subunit 13 [KO:K12456]
113637827  anapc15; anaphase-promoting complex subunit 15 isoform X2 [KO:K25228]
113662593  anapc16; anaphase-promoting complex subunit 16 [KO:K25229]
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
tfd03050  Proteasome
KO pathway
ko04120   
LinkDB

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