4A0L

Structure of DDB1-DDB2-CUL4B-RBX1 bound to a 12 bp abasic site containing DNA-duplex

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000781	cellular_component	chromosome, telomeric region
A	0003676	molecular_function	nucleic acid binding
A	0003677	molecular_function	DNA binding
A	0003684	molecular_function	damaged DNA binding
A	0005515	molecular_function	protein binding
A	0005615	cellular_component	extracellular space
A	0005634	cellular_component	nucleus
A	0005654	cellular_component	nucleoplasm
A	0005730	cellular_component	nucleolus
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	0006915	biological_process	apoptotic process
A	0006974	biological_process	DNA damage response
A	0007056	biological_process	spindle assembly involved in female meiosis
A	0010498	biological_process	proteasomal protein catabolic process
A	0016055	biological_process	Wnt signaling pathway
A	0016567	biological_process	protein ubiquitination
A	0019076	biological_process	viral release from host cell
A	0030674	molecular_function	protein-macromolecule adaptor activity
A	0031464	cellular_component	Cul4A-RING E3 ubiquitin ligase complex
A	0031465	cellular_component	Cul4B-RING E3 ubiquitin ligase complex
A	0032991	cellular_component	protein-containing complex
A	0034644	biological_process	cellular response to UV
A	0035234	biological_process	ectopic germ cell programmed cell death
A	0035861	cellular_component	site of double-strand break
A	0042752	biological_process	regulation of circadian rhythm
A	0043066	biological_process	negative regulation of apoptotic process
A	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
A	0044725	biological_process	epigenetic programming in the zygotic pronuclei
A	0044877	molecular_function	protein-containing complex binding
A	0045070	biological_process	positive regulation of viral genome replication
A	0045722	biological_process	positive regulation of gluconeogenesis
A	0045732	biological_process	positive regulation of protein catabolic process
A	0046726	biological_process	positive regulation by virus of viral protein levels in host cell
A	0048511	biological_process	rhythmic process
A	0051093	biological_process	negative regulation of developmental process
A	0051702	biological_process	biological process involved in interaction with symbiont
A	0070062	cellular_component	extracellular exosome
A	0070914	biological_process	UV-damage excision repair
A	0071987	molecular_function	WD40-repeat domain binding
A	0080008	cellular_component	Cul4-RING E3 ubiquitin ligase complex
A	0097225	cellular_component	sperm midpiece
A	0097228	cellular_component	sperm principal piece
A	0097229	cellular_component	sperm end piece
A	0097602	molecular_function	cullin family protein binding
A	0160072	molecular_function	ubiquitin ligase complex scaffold activity
A	1901990	biological_process	regulation of mitotic cell cycle phase transition
A	2000242	biological_process	negative regulation of reproductive process
B	0003684	molecular_function	damaged DNA binding
B	0005634	cellular_component	nucleus
B	0006281	biological_process	DNA repair
B	0080008	cellular_component	Cul4-RING E3 ubiquitin ligase complex
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	0006915	biological_process	apoptotic process
C	0006974	biological_process	DNA damage response
C	0007056	biological_process	spindle assembly involved in female meiosis
C	0010498	biological_process	proteasomal protein catabolic process
C	0016055	biological_process	Wnt signaling pathway
C	0016567	biological_process	protein ubiquitination
C	0019076	biological_process	viral release from host cell
C	0030674	molecular_function	protein-macromolecule adaptor activity
C	0031464	cellular_component	Cul4A-RING E3 ubiquitin ligase complex
C	0031465	cellular_component	Cul4B-RING E3 ubiquitin ligase complex
C	0032991	cellular_component	protein-containing complex
C	0034644	biological_process	cellular response to UV
C	0035234	biological_process	ectopic germ cell programmed cell death
C	0035861	cellular_component	site of double-strand break
C	0042752	biological_process	regulation of circadian rhythm
C	0043066	biological_process	negative 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	0046726	biological_process	positive regulation by virus of viral protein levels in host cell
C	0048511	biological_process	rhythmic process
C	0051093	biological_process	negative regulation of developmental process
C	0051702	biological_process	biological process involved in interaction with symbiont
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	0097225	cellular_component	sperm midpiece
C	0097228	cellular_component	sperm principal piece
C	0097229	cellular_component	sperm end piece
C	0097602	molecular_function	cullin family protein binding
C	0160072	molecular_function	ubiquitin ligase complex scaffold activity
C	1901990	biological_process	regulation of mitotic cell cycle phase transition
C	2000242	biological_process	negative regulation of reproductive process
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
E	0006511	biological_process	ubiquitin-dependent protein catabolic process
E	0031461	cellular_component	cullin-RING ubiquitin ligase complex
E	0031625	molecular_function	ubiquitin protein ligase binding
F	0000045	biological_process	autophagosome assembly
F	0000082	biological_process	G1/S transition of mitotic cell cycle
F	0000151	cellular_component	ubiquitin ligase complex
F	0000209	biological_process	protein polyubiquitination
F	0000423	biological_process	mitophagy
F	0001837	biological_process	epithelial to mesenchymal transition
F	0004842	molecular_function	ubiquitin-protein transferase activity
F	0005515	molecular_function	protein binding
F	0005634	cellular_component	nucleus
F	0005654	cellular_component	nucleoplasm
F	0005680	cellular_component	anaphase-promoting complex
F	0005737	cellular_component	cytoplasm
F	0005829	cellular_component	cytosol
F	0006281	biological_process	DNA repair
F	0006283	biological_process	transcription-coupled nucleotide-excision repair
F	0006366	biological_process	transcription by RNA polymerase II
F	0006368	biological_process	transcription elongation by RNA polymerase II
F	0006511	biological_process	ubiquitin-dependent protein catabolic process
F	0006513	biological_process	protein monoubiquitination
F	0006915	biological_process	apoptotic process
F	0006974	biological_process	DNA damage response
F	0006979	biological_process	response to oxidative stress
F	0007040	biological_process	lysosome organization
F	0007283	biological_process	spermatogenesis
F	0007346	biological_process	regulation of mitotic cell cycle
F	0008190	molecular_function	eukaryotic initiation factor 4E binding
F	0008270	molecular_function	zinc ion binding
F	0008286	biological_process	insulin receptor signaling pathway
F	0010507	biological_process	negative regulation of autophagy
F	0010508	biological_process	positive regulation of autophagy
F	0016567	biological_process	protein ubiquitination
F	0016740	molecular_function	transferase activity
F	0019005	cellular_component	SCF ubiquitin ligase complex
F	0030163	biological_process	protein catabolic process
F	0030330	biological_process	DNA damage response, signal transduction by p53 class mediator
F	0030891	cellular_component	VCB complex
F	0031146	biological_process	SCF-dependent proteasomal ubiquitin-dependent protein catabolic process
F	0031461	cellular_component	cullin-RING ubiquitin ligase complex
F	0031462	cellular_component	Cul2-RING ubiquitin ligase complex
F	0031463	cellular_component	Cul3-RING ubiquitin ligase complex
F	0031464	cellular_component	Cul4A-RING E3 ubiquitin ligase complex
F	0031465	cellular_component	Cul4B-RING E3 ubiquitin ligase complex
F	0031466	cellular_component	Cul5-RING ubiquitin ligase complex
F	0031467	cellular_component	Cul7-RING ubiquitin ligase complex
F	0031625	molecular_function	ubiquitin protein ligase binding
F	0031669	biological_process	cellular response to nutrient levels
F	0032435	biological_process	negative regulation of proteasomal ubiquitin-dependent protein catabolic process
F	0032436	biological_process	positive regulation of proteasomal ubiquitin-dependent protein catabolic process
F	0032480	biological_process	negative regulation of type I interferon production
F	0032481	biological_process	positive regulation of type I interferon production
F	0032869	biological_process	cellular response to insulin stimulus
F	0034198	biological_process	cellular response to amino acid starvation
F	0034450	molecular_function	ubiquitin-ubiquitin ligase activity
F	0034599	biological_process	cellular response to oxidative stress
F	0034644	biological_process	cellular response to UV
F	0035279	biological_process	miRNA-mediated gene silencing by mRNA destabilization
F	0038066	biological_process	p38MAPK cascade
F	0038202	biological_process	TORC1 signaling
F	0042110	biological_process	T cell activation
F	0042770	biological_process	signal transduction in response to DNA damage
F	0043123	biological_process	positive regulation of canonical NF-kappaB signal transduction
F	0043124	biological_process	negative regulation of canonical NF-kappaB signal transduction
F	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
F	0044877	molecular_function	protein-containing complex binding
F	0045116	biological_process	protein neddylation
F	0045727	biological_process	positive regulation of translation
F	0045732	biological_process	positive regulation of protein catabolic process
F	0045944	biological_process	positive regulation of transcription by RNA polymerase II
F	0046627	biological_process	negative regulation of insulin receptor signaling pathway
F	0046872	molecular_function	metal ion binding
F	0060090	molecular_function	molecular adaptor activity
F	0060337	biological_process	type I interferon-mediated signaling pathway
F	0061629	molecular_function	RNA polymerase II-specific DNA-binding transcription factor binding
F	0061630	molecular_function	ubiquitin protein ligase activity
F	0061663	molecular_function	NEDD8 ligase activity
F	0070936	biological_process	protein K48-linked ubiquitination
F	0071230	biological_process	cellular response to amino acid stimulus
F	0080008	cellular_component	Cul4-RING E3 ubiquitin ligase complex
F	0090734	cellular_component	site of DNA damage
F	0097510	biological_process	base-excision repair, AP site formation via deaminated base removal
F	0097602	molecular_function	cullin family protein binding
F	0140627	biological_process	ubiquitin-dependent protein catabolic process via the C-end degron rule pathway
F	0160240	biological_process	RNA polymerase II transcription initiation surveillance
F	1901797	biological_process	negative regulation of signal transduction by p53 class mediator
F	1902499	biological_process	positive regulation of protein autoubiquitination
F	1902883	biological_process	negative regulation of response to oxidative stress
F	1904037	biological_process	positive regulation of epithelial cell apoptotic process
F	1904262	biological_process	negative regulation of TORC1 signaling
F	1904263	biological_process	positive regulation of TORC1 signaling
F	2000059	biological_process	negative regulation of ubiquitin-dependent protein catabolic process
H	0006511	biological_process	ubiquitin-dependent protein catabolic process
H	0031461	cellular_component	cullin-RING ubiquitin ligase complex
H	0031625	molecular_function	ubiquitin protein ligase binding
I	0000045	biological_process	autophagosome assembly
I	0000082	biological_process	G1/S transition of mitotic cell cycle
I	0000151	cellular_component	ubiquitin ligase complex
I	0000209	biological_process	protein polyubiquitination
I	0000423	biological_process	mitophagy
I	0001837	biological_process	epithelial to mesenchymal transition
I	0004842	molecular_function	ubiquitin-protein transferase activity
I	0005515	molecular_function	protein binding
I	0005634	cellular_component	nucleus
I	0005654	cellular_component	nucleoplasm
I	0005680	cellular_component	anaphase-promoting complex
I	0005737	cellular_component	cytoplasm
I	0005829	cellular_component	cytosol
I	0006281	biological_process	DNA repair
I	0006283	biological_process	transcription-coupled nucleotide-excision repair
I	0006366	biological_process	transcription by RNA polymerase II
I	0006368	biological_process	transcription elongation by RNA polymerase II
I	0006511	biological_process	ubiquitin-dependent protein catabolic process
I	0006513	biological_process	protein monoubiquitination
I	0006915	biological_process	apoptotic process
I	0006974	biological_process	DNA damage response
I	0006979	biological_process	response to oxidative stress
I	0007040	biological_process	lysosome organization
I	0007283	biological_process	spermatogenesis
I	0007346	biological_process	regulation of mitotic cell cycle
I	0008190	molecular_function	eukaryotic initiation factor 4E binding
I	0008270	molecular_function	zinc ion binding
I	0008286	biological_process	insulin receptor signaling pathway
I	0010507	biological_process	negative regulation of autophagy
I	0010508	biological_process	positive regulation of autophagy
I	0016567	biological_process	protein ubiquitination
I	0016740	molecular_function	transferase activity
I	0019005	cellular_component	SCF ubiquitin ligase complex
I	0030163	biological_process	protein catabolic process
I	0030330	biological_process	DNA damage response, signal transduction by p53 class mediator
I	0030891	cellular_component	VCB complex
I	0031146	biological_process	SCF-dependent proteasomal ubiquitin-dependent protein catabolic process
I	0031461	cellular_component	cullin-RING ubiquitin ligase complex
I	0031462	cellular_component	Cul2-RING ubiquitin ligase complex
I	0031463	cellular_component	Cul3-RING ubiquitin ligase complex
I	0031464	cellular_component	Cul4A-RING E3 ubiquitin ligase complex
I	0031465	cellular_component	Cul4B-RING E3 ubiquitin ligase complex
I	0031466	cellular_component	Cul5-RING ubiquitin ligase complex
I	0031467	cellular_component	Cul7-RING ubiquitin ligase complex
I	0031625	molecular_function	ubiquitin protein ligase binding
I	0031669	biological_process	cellular response to nutrient levels
I	0032435	biological_process	negative regulation of proteasomal ubiquitin-dependent protein catabolic process
I	0032436	biological_process	positive regulation of proteasomal ubiquitin-dependent protein catabolic process
I	0032480	biological_process	negative regulation of type I interferon production
I	0032481	biological_process	positive regulation of type I interferon production
I	0032869	biological_process	cellular response to insulin stimulus
I	0034198	biological_process	cellular response to amino acid starvation
I	0034450	molecular_function	ubiquitin-ubiquitin ligase activity
I	0034599	biological_process	cellular response to oxidative stress
I	0034644	biological_process	cellular response to UV
I	0035279	biological_process	miRNA-mediated gene silencing by mRNA destabilization
I	0038066	biological_process	p38MAPK cascade
I	0038202	biological_process	TORC1 signaling
I	0042110	biological_process	T cell activation
I	0042770	biological_process	signal transduction in response to DNA damage
I	0043123	biological_process	positive regulation of canonical NF-kappaB signal transduction
I	0043124	biological_process	negative regulation of canonical NF-kappaB signal transduction
I	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
I	0044877	molecular_function	protein-containing complex binding
I	0045116	biological_process	protein neddylation
I	0045727	biological_process	positive regulation of translation
I	0045732	biological_process	positive regulation of protein catabolic process
I	0045944	biological_process	positive regulation of transcription by RNA polymerase II
I	0046627	biological_process	negative regulation of insulin receptor signaling pathway
I	0046872	molecular_function	metal ion binding
I	0060090	molecular_function	molecular adaptor activity
I	0060337	biological_process	type I interferon-mediated signaling pathway
I	0061629	molecular_function	RNA polymerase II-specific DNA-binding transcription factor binding
I	0061630	molecular_function	ubiquitin protein ligase activity
I	0061663	molecular_function	NEDD8 ligase activity
I	0070936	biological_process	protein K48-linked ubiquitination
I	0071230	biological_process	cellular response to amino acid stimulus
I	0080008	cellular_component	Cul4-RING E3 ubiquitin ligase complex
I	0090734	cellular_component	site of DNA damage
I	0097510	biological_process	base-excision repair, AP site formation via deaminated base removal
I	0097602	molecular_function	cullin family protein binding
I	0140627	biological_process	ubiquitin-dependent protein catabolic process via the C-end degron rule pathway
I	0160240	biological_process	RNA polymerase II transcription initiation surveillance
I	1901797	biological_process	negative regulation of signal transduction by p53 class mediator
I	1902499	biological_process	positive regulation of protein autoubiquitination
I	1902883	biological_process	negative regulation of response to oxidative stress
I	1904037	biological_process	positive regulation of epithelial cell apoptotic process
I	1904262	biological_process	negative regulation of TORC1 signaling
I	1904263	biological_process	positive regulation of TORC1 signaling
I	2000059	biological_process	negative regulation of ubiquitin-dependent protein catabolic process

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
B	MET294-LEU308

---

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

Chain	Residue	Details
E	LEU886-ALA913

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	632
Details	Region: {"description":"WD repeat beta-propeller B; Interaction with CUL4A"}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	2
Details	Modified residue: {"description":"N-acetylserine","evidences":[{"source":"PubMed","id":"19413330","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	2
Details	Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	2
Details	Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"UniProtKB","id":"Q9ESW0","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI5
Number of Residues	70
Details	Repeat: {"description":"WD 1"}

Chain

Residue

Details

---

site_id	SWS_FT_FI6
Number of Residues	70
Details	Repeat: {"description":"WD 2"}

Chain

Residue

Details

---

site_id	SWS_FT_FI7
Number of Residues	70
Details	Repeat: {"description":"WD 3"}

Chain

Residue

Details

---

site_id	SWS_FT_FI8
Number of Residues	86
Details	Repeat: {"description":"WD 4"}

Chain

Residue

Details

---

site_id	SWS_FT_FI9
Number of Residues	80
Details	Repeat: {"description":"WD 5"}

Chain

Residue

Details

---

site_id	SWS_FT_FI10
Number of Residues	80
Details	Repeat: {"description":"WD 6"}

Chain

Residue

Details

---

site_id	SWS_FT_FI11
Number of Residues	48
Details	Repeat: {"description":"WD 7"}

Chain

Residue

Details

---

site_id	SWS_FT_FI12
Number of Residues	4
Details	Region: {"description":"Photolesion recognition","evidences":[{"source":"PubMed","id":"19109893","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI13
Number of Residues	36
Details	Motif: {"description":"DWD box","evidences":[{"source":"UniProtKB","id":"Q92466","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI14
Number of Residues	120
Details	Domain: {"description":"Cullin neddylation","evidences":[{"evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI15
Number of Residues	4
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in NEDD8)","evidences":[{"source":"UniProtKB","id":"Q13616","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---