Function and Biology

Cryo-EM Structure of the DDB1-DCAF1-CUL4A-RBX1 Complex

Source organism: Homo sapiens

EC 2.3.2.32: Cullin-RING-type E3 NEDD8 transferase

Reaction catalysed:
S-[NEDD8-protein]-yl-[E2 NEDD8-conjugating enzyme]-L-cysteine + [cullin]-L-lysine = [E2 NEDD8-conjugating enzyme]-L-cysteine + N(6)-[NEDD8-protein]-yl-[cullin]-L-lysine
Systematic name:
S-[NEDD8-protein]-yl-[E2 NEDD8-conjugating enzyme]-L-cysteine:[cullin] [NEDD8-protein] transferase (isopeptide bond-forming; RING-type)
Alternative Name(s):
  • RBX1 (gene name)

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

EC 2.7.11.1: Non-specific serine/threonine protein kinase

Reaction catalysed:
ATP + a protein = ADP + a phosphoprotein
Systematic name:
ATP:protein phosphotransferase (non-specific)
Alternative Name(s):
  • A-kinase
  • AP50 kinase
  • ATP-protein transphosphorylase
  • Beta-IIPKC
  • Beta-adrenergic receptor kinase
  • CK-2
  • CKI
  • CKII
  • Calcium-dependent protein kinase C
  • Calcium/phospholipid-dependent protein kinase
  • Casein kinase
  • Casein kinase (phosphorylating)
  • Casein kinase 2
  • Casein kinase I
  • Casein kinase II
  • Cyclic AMP-dependent protein kinase
  • Cyclic AMP-dependent protein kinase A
  • Cyclic monophosphate-dependent protein kinase
  • Cyclic nucleotide-dependent protein kinase
  • Cyclin-dependent kinase
  • Cytidine 3',5'-cyclic monophosphate-responsive protein kinase
  • Dsk1
  • Epsilon PKC
  • Glycogen synthase A kinase
  • Glycogen synthase a kinase
  • Glycogen synthase kinase
  • HIPK2
  • Hpr kinase
  • Hydroxyalkyl-protein kinase
  • M phase-specific cdc2 kinase
  • MAPK
  • Mitogen-activated S6 kinase
  • Mitogen-activated protein kinase
  • P82 kinase
  • PKA
  • PKC
  • Phosphorylase B kinase kinase
  • Phosphorylase b kinase kinase
  • Phosphorylase b kinase kinase
  • Protein glutamyl kinase
  • Protein kinase (phosphorylating)
  • Protein kinase A
  • Protein kinase CK2
  • Protein kinase p58
  • Protein phosphokinase
  • Protein serine kinase
  • Protein serine-threonine kinase
  • Protein-aspartyl kinase
  • Protein-cysteine kinase
  • Protein-serine kinase
  • Prp4 protein kinase
  • Raf kinase
  • Raf-1
  • Ribosomal S6 protein kinase
  • Ribosomal protein S6 kinase II
  • STK32
  • Serine kinase
  • Serine protein kinase
  • Serine(threonine) protein kinase
  • Serine-specific protein kinase
  • Serine/threonine protein kinase
  • T-antigen kinase
  • Threonine-specific protein kinase
  • Twitchin kinase
  • Type-2 casein kinase
  • WEE1Hu
  • Wee 1-like kinase
  • Wee-kinase
  • cAMP-dependent protein kinase
  • cAMP-dependent protein kinase A
  • cGMP-dependent protein kinase

Sequence families

Pfam Protein families (Pfam)
PF12678
Domain description: RING-H2 zinc finger domain
Occurring in:
  1. E3 ubiquitin-protein ligase RBX1
The deposited structure of PDB entry 7okq contains 4 copies of Pfam domain PF12678 (RING-H2 zinc finger domain) in E3 ubiquitin-protein ligase RBX1. Showing 1 copy in chain D.

PF10557
Domain description: Cullin protein neddylation domain
Occurring in:
  1. Cullin-4A
The deposited structure of PDB entry 7okq contains 4 copies of Pfam domain PF10557 (Cullin protein neddylation domain) in Cullin-4A. Showing 1 copy in chain C.

PF00888
Domain description: Cullin family
Occurring in:
  1. Cullin-4A
The deposited structure of PDB entry 7okq contains 4 copies of Pfam domain PF00888 (Cullin family) in Cullin-4A. Showing 1 copy in chain C.

PF03178
Domain description: CPSF A subunit region
Occurring in:
  1. DNA damage-binding protein 1
The deposited structure of PDB entry 7okq contains 4 copies of Pfam domain PF03178 (CPSF A subunit region) in DNA damage-binding protein 1. Showing 1 copy in chain A.

PF10433
Domain description: Mono-functional DNA-alkylating methyl methanesulfonate N-term
Occurring in:
  1. DNA damage-binding protein 1
The deposited structure of PDB entry 7okq contains 4 copies of Pfam domain PF10433 (Mono-functional DNA-alkylating methyl methanesulfonate N-term) in DNA damage-binding protein 1. Showing 1 copy in chain A.

InterPro InterPro annotations
IPR015943
Domain description: WD40/YVTN repeat-like-containing domain superfamily
Occurring in:
  1. DNA damage-binding protein 1
  2. DDB1- and CUL4-associated factor 1
IPR019559
Domain description: Cullin protein, neddylation domain
Occurring in:
  1. Cullin-4A
IPR016158
Domain description: Cullin homology domain
Occurring in:
  1. Cullin-4A
IPR036322
Domain description: WD40-repeat-containing domain superfamily
Occurring in:
  1. DNA damage-binding protein 1
  2. DDB1- and CUL4-associated factor 1
IPR001841
Domain description: Zinc finger, RING-type
Occurring in:
  1. E3 ubiquitin-protein ligase RBX1
IPR024766
Domain description: Zinc finger, RING-H2-type
Occurring in:
  1. E3 ubiquitin-protein ligase RBX1
IPR013083
Domain description: Zinc finger, RING/FYVE/PHD-type
Occurring in:
  1. E3 ubiquitin-protein ligase RBX1
IPR016157
Domain description: Cullin, conserved site
Occurring in:
  1. Cullin-4A
IPR036388
Domain description: Winged helix-like DNA-binding domain superfamily
Occurring in:
  1. Cullin-4A
IPR036390
Domain description: Winged helix DNA-binding domain superfamily
Occurring in:
  1. Cullin-4A
IPR036317
Domain description: Cullin homology domain superfamily
Occurring in:
  1. Cullin-4A
IPR001373
Domain description: Cullin, N-terminal
Occurring in:
  1. Cullin-4A
IPR045093
Domain description: Cullin
Occurring in:
  1. Cullin-4A
IPR016159
Domain description: Cullin repeat-like-containing domain superfamily
Occurring in:
  1. Cullin-4A
IPR006594
Domain description: LIS1 homology motif
Occurring in:
  1. DDB1- and CUL4-associated factor 1
IPR011989
Domain description: Armadillo-like helical
Occurring in:
  1. DDB1- and CUL4-associated factor 1
IPR016024
Domain description: Armadillo-type fold
Occurring in:
  1. DDB1- and CUL4-associated factor 1
IPR033270
Domain description: VPRBP/DCAF1 family
Occurring in:
  1. DDB1- and CUL4-associated factor 1
IPR004871
Domain description: Cleavage/polyadenylation specificity factor, A subunit, C-terminal
Occurring in:
  1. DNA damage-binding protein 1
IPR018846
Domain description: RSE1/DDB1/CPSF1, first beta-propeller domain
Occurring in:
  1. DNA damage-binding protein 1