4A0K

STRUCTURE OF DDB1-DDB2-CUL4A-RBX1 BOUND TO A 12 BP ABASIC SITE CONTAINING DNA-DUPLEX

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000082	biological_process	G1/S transition of mitotic cell cycle
A	0001701	biological_process	in utero embryonic development
A	0005515	molecular_function	protein binding
A	0005634	cellular_component	nucleus
A	0005654	cellular_component	nucleoplasm
A	0005737	cellular_component	cytoplasm
A	0006281	biological_process	DNA repair
A	0006289	biological_process	nucleotide-excision repair
A	0006511	biological_process	ubiquitin-dependent protein catabolic process
A	0006974	biological_process	DNA damage response
A	0007283	biological_process	spermatogenesis
A	0008283	biological_process	cell population proliferation
A	0010506	biological_process	regulation of autophagy
A	0016567	biological_process	protein ubiquitination
A	0030174	biological_process	regulation of DNA-templated DNA replication initiation
A	0031297	biological_process	replication fork processing
A	0031461	cellular_component	cullin-RING ubiquitin ligase complex
A	0031464	cellular_component	Cul4A-RING E3 ubiquitin ligase complex
A	0031625	molecular_function	ubiquitin protein ligase binding
A	0032502	biological_process	developmental process
A	0032814	biological_process	regulation of natural killer cell activation
A	0034644	biological_process	cellular response to UV
A	0040029	biological_process	epigenetic regulation of gene expression
A	0042110	biological_process	T cell activation
A	0042127	biological_process	regulation of cell population proliferation
A	0042254	biological_process	ribosome biogenesis
A	0042981	biological_process	regulation of apoptotic process
A	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
A	0045732	biological_process	positive regulation of protein catabolic process
A	0045995	biological_process	regulation of embryonic development
A	0048511	biological_process	rhythmic process
A	0051246	biological_process	regulation of protein metabolic process
A	0060964	biological_process	regulation of miRNA-mediated gene silencing
A	0061630	molecular_function	ubiquitin protein ligase activity
A	0080008	cellular_component	Cul4-RING E3 ubiquitin ligase complex
A	0080135	biological_process	regulation of cellular response to stress
A	0097193	biological_process	intrinsic apoptotic signaling pathway
A	0140627	biological_process	ubiquitin-dependent protein catabolic process via the C-end degron rule pathway
A	0160072	molecular_function	ubiquitin ligase complex scaffold activity
A	1901987	biological_process	regulation of cell cycle phase transition
A	1902412	biological_process	regulation of mitotic cytokinesis
A	1904178	biological_process	negative regulation of adipose tissue development
A	2000036	biological_process	regulation of stem cell population maintenance
B	0000045	biological_process	autophagosome assembly
B	0000082	biological_process	G1/S transition of mitotic cell cycle
B	0000109	cellular_component	nucleotide-excision repair complex
B	0000151	cellular_component	ubiquitin ligase complex
B	0000209	biological_process	protein polyubiquitination
B	0000423	biological_process	mitophagy
B	0001837	biological_process	epithelial to mesenchymal transition
B	0004842	molecular_function	ubiquitin-protein transferase activity
B	0005515	molecular_function	protein binding
B	0005634	cellular_component	nucleus
B	0005654	cellular_component	nucleoplasm
B	0005680	cellular_component	anaphase-promoting complex
B	0005737	cellular_component	cytoplasm
B	0005794	cellular_component	Golgi apparatus
B	0005829	cellular_component	cytosol
B	0006281	biological_process	DNA repair
B	0006283	biological_process	transcription-coupled nucleotide-excision repair
B	0006366	biological_process	transcription by RNA polymerase II
B	0006368	biological_process	transcription elongation by RNA polymerase II
B	0006511	biological_process	ubiquitin-dependent protein catabolic process
B	0006513	biological_process	protein monoubiquitination
B	0006915	biological_process	apoptotic process
B	0006974	biological_process	DNA damage response
B	0006979	biological_process	response to oxidative stress
B	0007040	biological_process	lysosome organization
B	0007283	biological_process	spermatogenesis
B	0007346	biological_process	regulation of mitotic cell cycle
B	0008190	molecular_function	eukaryotic initiation factor 4E binding
B	0008270	molecular_function	zinc ion binding
B	0008286	biological_process	insulin receptor signaling pathway
B	0010507	biological_process	negative regulation of autophagy
B	0010508	biological_process	positive regulation of autophagy
B	0016567	biological_process	protein ubiquitination
B	0016740	molecular_function	transferase activity
B	0019005	cellular_component	SCF ubiquitin ligase complex
B	0030163	biological_process	protein catabolic process
B	0030330	biological_process	DNA damage response, signal transduction by p53 class mediator
B	0030891	cellular_component	VCB complex
B	0031146	biological_process	SCF-dependent proteasomal ubiquitin-dependent protein catabolic process
B	0031461	cellular_component	cullin-RING ubiquitin ligase complex
B	0031462	cellular_component	Cul2-RING ubiquitin ligase complex
B	0031463	cellular_component	Cul3-RING ubiquitin ligase complex
B	0031464	cellular_component	Cul4A-RING E3 ubiquitin ligase complex
B	0031465	cellular_component	Cul4B-RING E3 ubiquitin ligase complex
B	0031466	cellular_component	Cul5-RING ubiquitin ligase complex
B	0031467	cellular_component	Cul7-RING ubiquitin ligase complex
B	0031625	molecular_function	ubiquitin protein ligase binding
B	0031669	biological_process	cellular response to nutrient levels
B	0032435	biological_process	negative regulation of proteasomal ubiquitin-dependent protein catabolic process
B	0032436	biological_process	positive regulation of proteasomal ubiquitin-dependent protein catabolic process
B	0032480	biological_process	negative regulation of type I interferon production
B	0032481	biological_process	positive regulation of type I interferon production
B	0032869	biological_process	cellular response to insulin stimulus
B	0034198	biological_process	cellular response to amino acid starvation
B	0034450	molecular_function	ubiquitin-ubiquitin ligase activity
B	0034599	biological_process	cellular response to oxidative stress
B	0034644	biological_process	cellular response to UV
B	0035279	biological_process	miRNA-mediated gene silencing by mRNA destabilization
B	0038066	biological_process	p38MAPK cascade
B	0038202	biological_process	TORC1 signaling
B	0042110	biological_process	T cell activation
B	0042770	biological_process	signal transduction in response to DNA damage
B	0043123	biological_process	positive regulation of canonical NF-kappaB signal transduction
B	0043124	biological_process	negative regulation of canonical NF-kappaB signal transduction
B	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
B	0044314	biological_process	protein K27-linked ubiquitination
B	0044877	molecular_function	protein-containing complex binding
B	0045116	biological_process	protein neddylation
B	0045727	biological_process	positive regulation of translation
B	0045732	biological_process	positive regulation of protein catabolic process
B	0045944	biological_process	positive regulation of transcription by RNA polymerase II
B	0046627	biological_process	negative regulation of insulin receptor signaling pathway
B	0046872	molecular_function	metal ion binding
B	0060090	molecular_function	molecular adaptor activity
B	0060337	biological_process	type I interferon-mediated signaling pathway
B	0061629	molecular_function	RNA polymerase II-specific DNA-binding transcription factor binding
B	0061630	molecular_function	ubiquitin protein ligase activity
B	0061663	molecular_function	NEDD8 ligase activity
B	0070936	biological_process	protein K48-linked ubiquitination
B	0071230	biological_process	cellular response to amino acid stimulus
B	0080008	cellular_component	Cul4-RING E3 ubiquitin ligase complex
B	0090734	cellular_component	site of DNA damage
B	0097510	biological_process	base-excision repair, AP site formation via deaminated base removal
B	0097602	molecular_function	cullin family protein binding
B	0140627	biological_process	ubiquitin-dependent protein catabolic process via the C-end degron rule pathway
B	0160240	biological_process	RNA polymerase II transcription initiation surveillance
B	1901797	biological_process	negative regulation of signal transduction by p53 class mediator
B	1902499	biological_process	positive regulation of protein autoubiquitination
B	1902883	biological_process	negative regulation of response to oxidative stress
B	1904037	biological_process	positive regulation of epithelial cell apoptotic process
B	1904262	biological_process	negative regulation of TORC1 signaling
B	1904263	biological_process	positive regulation of TORC1 signaling
B	2000059	biological_process	negative regulation of ubiquitin-dependent protein catabolic process
C	0000781	cellular_component	chromosome, telomeric region
C	0003676	molecular_function	nucleic acid binding
C	0003677	molecular_function	DNA binding
C	0003684	molecular_function	damaged DNA binding
C	0005515	molecular_function	protein binding
C	0005615	cellular_component	extracellular space
C	0005634	cellular_component	nucleus
C	0005654	cellular_component	nucleoplasm
C	0005730	cellular_component	nucleolus
C	0005737	cellular_component	cytoplasm
C	0006281	biological_process	DNA repair
C	0006289	biological_process	nucleotide-excision repair
C	0006511	biological_process	ubiquitin-dependent protein catabolic process
C	0006974	biological_process	DNA damage response
C	0007056	biological_process	spindle assembly involved in female meiosis
C	0007283	biological_process	spermatogenesis
C	0008283	biological_process	cell population proliferation
C	0010498	biological_process	proteasomal protein catabolic process
C	0010506	biological_process	regulation of autophagy
C	0016567	biological_process	protein ubiquitination
C	0019076	biological_process	viral release from host cell
C	0030174	biological_process	regulation of DNA-templated DNA replication initiation
C	0030674	molecular_function	protein-macromolecule adaptor activity
C	0031297	biological_process	replication fork processing
C	0031464	cellular_component	Cul4A-RING E3 ubiquitin ligase complex
C	0031465	cellular_component	Cul4B-RING E3 ubiquitin ligase complex
C	0032814	biological_process	regulation of natural killer cell activation
C	0032991	cellular_component	protein-containing complex
C	0034644	biological_process	cellular response to UV
C	0035861	cellular_component	site of double-strand break
C	0040029	biological_process	epigenetic regulation of gene expression
C	0042127	biological_process	regulation of cell population proliferation
C	0042752	biological_process	regulation of circadian rhythm
C	0042981	biological_process	regulation of apoptotic process
C	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
C	0044725	biological_process	epigenetic programming in the zygotic pronuclei
C	0044877	molecular_function	protein-containing complex binding
C	0045070	biological_process	positive regulation of viral genome replication
C	0045722	biological_process	positive regulation of gluconeogenesis
C	0045732	biological_process	positive regulation of protein catabolic process
C	0045995	biological_process	regulation of embryonic development
C	0046726	biological_process	positive regulation by virus of viral protein levels in host cell
C	0048511	biological_process	rhythmic process
C	0051702	biological_process	biological process involved in interaction with symbiont
C	0060964	biological_process	regulation of miRNA-mediated gene silencing
C	0070062	cellular_component	extracellular exosome
C	0070914	biological_process	UV-damage excision repair
C	0071987	molecular_function	WD40-repeat domain binding
C	0080008	cellular_component	Cul4-RING E3 ubiquitin ligase complex
C	0080135	biological_process	regulation of cellular response to stress
C	0097602	molecular_function	cullin family protein binding
C	0160072	molecular_function	ubiquitin ligase complex scaffold activity
C	1901987	biological_process	regulation of cell cycle phase transition
C	1901990	biological_process	regulation of mitotic cell cycle phase transition
C	1902412	biological_process	regulation of mitotic cytokinesis
C	1904178	biological_process	negative regulation of adipose tissue development
C	2000036	biological_process	regulation of stem cell population maintenance
D	0003684	molecular_function	damaged DNA binding
D	0005634	cellular_component	nucleus
D	0006281	biological_process	DNA repair
D	0080008	cellular_component	Cul4-RING E3 ubiquitin ligase complex

Functional Information from PROSITE/UniProt

site_id	PS00678
Number of Residues	15
Details	WD_REPEATS_1 Trp-Asp (WD) repeats signature. MATSsvDaTVKLWDL

Chain	Residue	Details
D	MET294-LEU308

---

site_id	PS01256
Number of Residues	28
Details	CULLIN_1 Cullin family signature. LKkrIesLIDRdYMeRdkdnpnqYhYvA

Chain	Residue	Details
A	LEU732-ALA759

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	60
Details	Domain: {"description":"Cullin neddylation","evidences":[{"evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	2
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in NEDD8)","evidences":[{"source":"PubMed","id":"38316879","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	316
Details	Region: {"description":"WD repeat beta-propeller B; Interaction with CUL4A"}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	1
Details	Modified residue: {"description":"N-acetylserine","evidences":[{"source":"PubMed","id":"19413330","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI5
Number of Residues	1
Details	Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI6
Number of Residues	1
Details	Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"UniProtKB","id":"Q9ESW0","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI7
Number of Residues	35
Details	Repeat: {"description":"WD 1"}

Chain

Residue

Details

---

site_id	SWS_FT_FI8
Number of Residues	35
Details	Repeat: {"description":"WD 2"}

Chain

Residue

Details

---

site_id	SWS_FT_FI9
Number of Residues	35
Details	Repeat: {"description":"WD 3"}

Chain

Residue

Details

---

site_id	SWS_FT_FI10
Number of Residues	43
Details	Repeat: {"description":"WD 4"}

Chain

Residue

Details

---

site_id	SWS_FT_FI11
Number of Residues	40
Details	Repeat: {"description":"WD 5"}

Chain

Residue

Details

---

site_id	SWS_FT_FI12
Number of Residues	40
Details	Repeat: {"description":"WD 6"}

Chain

Residue

Details

---

site_id	SWS_FT_FI13
Number of Residues	24
Details	Repeat: {"description":"WD 7"}

Chain

Residue

Details

---

site_id	SWS_FT_FI14
Number of Residues	2
Details	Region: {"description":"Photolesion recognition","evidences":[{"source":"PubMed","id":"19109893","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI15
Number of Residues	18
Details	Motif: {"description":"DWD box","evidences":[{"source":"UniProtKB","id":"Q92466","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---