Ubiquitin System — Tree (Atriplex hortensis)

Ubiquitin System (Atriplex hortensis)

Method. Proteins were annotated using UUCD-derived HMM profiles and family-specific score cutoffs with HMMER (hmmsearch).

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+DUB(27 genes, 4 categories)
- +JAMM(2 genes)
  - Ah016369
  - Ah034416
- +UCH(1 genes)
  - Ah003883
- +ULP(2 genes)
  - Ah020904
  - Ah023696
- +USP(22 genes)
+E1(5 genes)
+E2(38 genes, 2 categories)
- +UBC(35 genes)
- +UEV(3 genes)
+E3_activity(383 genes, 3 categories)
+E3_adaptor(512 genes, 1 categories)
- +Cullin_RING(512 genes, 5 categories)
  - +APC_C(4 genes, 1 categories)
    - +CDC20(4 genes)
  - +BCR(36 genes, 1 categories)
    - +BTB(36 genes)
  - +Cullin(4 genes)
  - +DCX(198 genes, 2 categories)
    - +DDB1(1 genes)
      - Ah016141
    - +DWD(197 genes)
  - +SCF(270 genes, 2 categories)
    - +F-box(260 genes)
    - +SKP1(10 genes)
+UBD(119 genes, 5 categories)
- +Alpha-Helix(38 genes, 4 categories)
  - +CUE(1 genes)
    - Ah018226
  - +UBA(30 genes)
  - +UBM(1 genes)
    - Ah009079
  - +UIM(6 genes)
- +Beta-Prp(49 genes)
- +SH3(1 genes)
  - Ah004698
- +UBC-like(28 genes, 2 categories)
  - +UBD_UBC(27 genes)
  - +UBD_UEV(1 genes)
    - Ah033340
- +ZnF(3 genes, 2 categories)
  - +NZF(1 genes)
    - Ah028602
  - +ZnF_UBP(2 genes)
    - Ah010413
    - Ah028443
+ULD(77 genes, 2 categories)
- +UBL(8 genes, 3 categories)
  - +ATG8(2 genes)
    - Ah004802
    - Ah017517
  - +NEDD8(2 genes)
    - Ah000029
    - Ah018539
  - +SUMO(4 genes)
- +UDP(69 genes, 2 categories)
  - +UBQ(53 genes, 2 categories)
    - +UBQ_Other(35 genes)
    - +UBQ_PIM(18 genes)
  - +UFD(16 genes, 2 categories)
    - +PB1(8 genes)
    - +UBX(8 genes)