Function and Biology

Rnf4 - ubch5a - ubiquitin heterotrimeric complex

EC 2.3.2.24: (E3-independent) E2 ubiquitin-conjugating enzyme

Reaction catalysed:
(1a) S-ubiquitinyl-[E1 ubiquitin-activating enzyme]-L-cysteine + [(E3-independent) E2 ubiquitin-conjugating enzyme]-L-cysteine = [E1 ubiquitin-activating enzyme]-L-cysteine + S-monoubiquitinyl-[(E3-independent) ubiquitin-conjugating enzyme]-L-cysteine
Systematic name:
S-ubiquitinyl-[E1 ubiquitin-activating enzyme]-L-cysteine:L-lysine ubiquitinyl transferase ([E3 ubiquitin transferase]-independent)
Alternative Name(s):
  • E2-230K
  • E3-independent ubiquitin-conjugating enzyme E2
  • UBE2O

EC 2.3.2.23: E2 ubiquitin-conjugating enzyme

Reaction catalysed:
S-ubiquitinyl-[E1 ubiquitin-activating enzyme]-L-cysteine + [E2 ubiquitin-conjugating enzyme]-L-cysteine = [E1 ubiquitin-activating enzyme]-L-cysteine + S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine
Systematic name:
S-ubiquitinyl-[E1 ubiquitin-activating enzyme]-L-cysteine:[E2 ubiquitin-conjugating enzyme] ubiquitinyl transferase
Alternative Name(s):
  • UBC
  • Ubiquitin-carrier-protein E2
  • Ubiquitin-conjugating enzyme E2

EC 2.3.2.27: RING-type E3 ubiquitin transferase

Reaction catalysed:
S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine
Systematic name:
[E2 ubiquitin-conjugating enzyme]-S-ubiquitinyl-L-cysteine:[acceptor protein]-L-lysine ubiquitin transferase (isopeptide bond-forming; RING-type)
Alternative Name(s):
  • RING E3 ligase
  • Ubiquitin transferase RING E3

Sequence families

Pfam Protein families (Pfam)
PF00240
Domain description: Ubiquitin family
Occurring in:
  1. Ubiquitin
The deposited structure of PDB entry 4ap4 contains 2 copies of Pfam domain PF00240 (Ubiquitin family) in Ubiquitin. Showing 1 copy in chain E [auth F].

PF00179
Domain description: Ubiquitin-conjugating enzyme
Occurring in:
  1. Ubiquitin-conjugating enzyme E2 D1
The deposited structure of PDB entry 4ap4 contains 2 copies of Pfam domain PF00179 (Ubiquitin-conjugating enzyme) in Ubiquitin-conjugating enzyme E2 D1. Showing 1 copy in chain B.

PF13639
Domain description: Ring finger domain
Occurring in:
  1. E3 ubiquitin-protein ligase RNF4
The deposited structure of PDB entry 4ap4 contains 1 copy of Pfam domain PF13639 (Ring finger domain) in E3 ubiquitin-protein ligase RNF4. Showing 1 copy in chain A.

InterPro InterPro annotations
IPR019956
Domain description: Ubiquitin domain
Occurring in:
  1. Ubiquitin
IPR000626
Domain description: Ubiquitin-like domain
Occurring in:
  1. Ubiquitin
IPR000608
Domain description: Ubiquitin-conjugating enzyme E2
Occurring in:
  1. Ubiquitin-conjugating enzyme E2 D1
IPR016135
Domain description: Ubiquitin-conjugating enzyme/RWD-like
Occurring in:
  1. Ubiquitin-conjugating enzyme E2 D1
IPR001841
Domain description: Zinc finger, RING-type
Occurring in:
  1. E3 ubiquitin-protein ligase RNF4
IPR043295
Domain description: RNF4, RING finger, HC subclass
Occurring in:
  1. E3 ubiquitin-protein ligase RNF4
IPR019954
Domain description: Ubiquitin conserved site
Occurring in:
  1. Ubiquitin
IPR029071
Domain description: Ubiquitin-like domain superfamily
Occurring in:
  1. Ubiquitin
IPR017907
Domain description: Zinc finger, RING-type, conserved site
Occurring in:
  1. E3 ubiquitin-protein ligase RNF4
IPR013083
Domain description: Zinc finger, RING/FYVE/PHD-type
Occurring in:
  1. E3 ubiquitin-protein ligase RNF4
IPR047134
Domain description: E3 ubiquitin-protein ligase RNF4
Occurring in:
  1. E3 ubiquitin-protein ligase RNF4

Structure domains

CATH CATH domains
3.10.20.90
Class: Alpha Beta
Architecture: Roll
Topology: Ubiquitin-like (UB roll)
Homology: Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1
Occurring in:
  1. Ubiquitin
The deposited structure of PDB entry 4ap4 contains 2 copies of CATH domain 3.10.20.90 (Ubiquitin-like (UB roll)) in Ubiquitin. Showing 1 copy in chain E [auth F].
3.10.110.10
Class: Alpha Beta
Architecture: Roll
Topology: Ubiquitin Conjugating Enzyme
Homology: Ubiquitin Conjugating Enzyme
Occurring in:
  1. Ubiquitin-conjugating enzyme E2 D1
The deposited structure of PDB entry 4ap4 contains 2 copies of CATH domain 3.10.110.10 (Ubiquitin Conjugating Enzyme) in Ubiquitin-conjugating enzyme E2 D1. Showing 1 copy in chain B.
3.30.40.10
Class: Alpha Beta
Architecture: 2-Layer Sandwich
Topology: Herpes Virus-1
Homology: Zinc/RING finger domain, C3HC4 (zinc finger)
Occurring in:
  1. E3 ubiquitin-protein ligase RNF4
The deposited structure of PDB entry 4ap4 contains 1 copy of CATH domain 3.30.40.10 (Herpes Virus-1) in E3 ubiquitin-protein ligase RNF4. Showing 1 copy in chain A.