6XK9

Cereblon in complex with DDB1, CC-90009, and GSPT1

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0005525	molecular_function	GTP binding
B	0000109	cellular_component	nucleotide-excision repair complex
B	0000781	cellular_component	chromosome, telomeric region
B	0003676	molecular_function	nucleic acid binding
B	0003677	molecular_function	DNA binding
B	0003684	molecular_function	damaged DNA binding
B	0005515	molecular_function	protein binding
B	0005615	cellular_component	extracellular space
B	0005634	cellular_component	nucleus
B	0005654	cellular_component	nucleoplasm
B	0005730	cellular_component	nucleolus
B	0005737	cellular_component	cytoplasm
B	0006281	biological_process	DNA repair
B	0006289	biological_process	nucleotide-excision repair
B	0006511	biological_process	ubiquitin-dependent protein catabolic process
B	0006974	biological_process	DNA damage response
B	0007056	biological_process	spindle assembly involved in female meiosis
B	0007283	biological_process	spermatogenesis
B	0008283	biological_process	cell population proliferation
B	0010498	biological_process	proteasomal protein catabolic process
B	0010506	biological_process	regulation of autophagy
B	0016567	biological_process	protein ubiquitination
B	0019076	biological_process	viral release from host cell
B	0030174	biological_process	regulation of DNA-templated DNA replication initiation
B	0030674	molecular_function	protein-macromolecule adaptor activity
B	0031297	biological_process	replication fork processing
B	0031464	cellular_component	Cul4A-RING E3 ubiquitin ligase complex
B	0031465	cellular_component	Cul4B-RING E3 ubiquitin ligase complex
B	0032814	biological_process	regulation of natural killer cell activation
B	0032991	cellular_component	protein-containing complex
B	0034644	biological_process	cellular response to UV
B	0035861	cellular_component	site of double-strand break
B	0040029	biological_process	epigenetic regulation of gene expression
B	0042127	biological_process	regulation of cell population proliferation
B	0042752	biological_process	regulation of circadian rhythm
B	0042981	biological_process	regulation of apoptotic process
B	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
B	0044725	biological_process	epigenetic programming in the zygotic pronuclei
B	0044877	molecular_function	protein-containing complex binding
B	0045070	biological_process	positive regulation of viral genome replication
B	0045722	biological_process	positive regulation of gluconeogenesis
B	0045732	biological_process	positive regulation of protein catabolic process
B	0045995	biological_process	regulation of embryonic development
B	0046726	biological_process	positive regulation by virus of viral protein levels in host cell
B	0048511	biological_process	rhythmic process
B	0051702	biological_process	biological process involved in interaction with symbiont
B	0060964	biological_process	regulation of miRNA-mediated gene silencing
B	0070062	cellular_component	extracellular exosome
B	0070914	biological_process	UV-damage excision repair
B	0071987	molecular_function	WD40-repeat domain binding
B	0080008	cellular_component	Cul4-RING E3 ubiquitin ligase complex
B	0080135	biological_process	regulation of cellular response to stress
B	0097602	molecular_function	cullin family protein binding
B	0160072	molecular_function	ubiquitin ligase complex scaffold activity
B	1901987	biological_process	regulation of cell cycle phase transition
B	1901990	biological_process	regulation of mitotic cell cycle phase transition
B	1902412	biological_process	regulation of mitotic cytokinesis
B	1904178	biological_process	negative regulation of adipose tissue development
B	2000036	biological_process	regulation of stem cell population maintenance
C	0005515	molecular_function	protein binding
C	0005634	cellular_component	nucleus
C	0005737	cellular_component	cytoplasm
C	0005829	cellular_component	cytosol
C	0016020	cellular_component	membrane
C	0016567	biological_process	protein ubiquitination
C	0030177	biological_process	positive regulation of Wnt signaling pathway
C	0031333	biological_process	negative regulation of protein-containing complex assembly
C	0031334	biological_process	positive regulation of protein-containing complex assembly
C	0031464	cellular_component	Cul4A-RING E3 ubiquitin ligase complex
C	0031465	cellular_component	Cul4B-RING E3 ubiquitin ligase complex
C	0034766	biological_process	negative regulation of monoatomic ion transmembrane transport
C	0035641	biological_process	locomotory exploration behavior
C	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
C	0044325	molecular_function	transmembrane transporter binding
C	0046872	molecular_function	metal ion binding
C	0048471	cellular_component	perinuclear region of cytoplasm
C	0060173	biological_process	limb development
X	0005525	molecular_function	GTP binding
Y	0000109	cellular_component	nucleotide-excision repair complex
Y	0000781	cellular_component	chromosome, telomeric region
Y	0003676	molecular_function	nucleic acid binding
Y	0003677	molecular_function	DNA binding
Y	0003684	molecular_function	damaged DNA binding
Y	0005515	molecular_function	protein binding
Y	0005615	cellular_component	extracellular space
Y	0005634	cellular_component	nucleus
Y	0005654	cellular_component	nucleoplasm
Y	0005730	cellular_component	nucleolus
Y	0005737	cellular_component	cytoplasm
Y	0006281	biological_process	DNA repair
Y	0006289	biological_process	nucleotide-excision repair
Y	0006511	biological_process	ubiquitin-dependent protein catabolic process
Y	0006974	biological_process	DNA damage response
Y	0007056	biological_process	spindle assembly involved in female meiosis
Y	0007283	biological_process	spermatogenesis
Y	0008283	biological_process	cell population proliferation
Y	0010498	biological_process	proteasomal protein catabolic process
Y	0010506	biological_process	regulation of autophagy
Y	0016567	biological_process	protein ubiquitination
Y	0019076	biological_process	viral release from host cell
Y	0030174	biological_process	regulation of DNA-templated DNA replication initiation
Y	0030674	molecular_function	protein-macromolecule adaptor activity
Y	0031297	biological_process	replication fork processing
Y	0031464	cellular_component	Cul4A-RING E3 ubiquitin ligase complex
Y	0031465	cellular_component	Cul4B-RING E3 ubiquitin ligase complex
Y	0032814	biological_process	regulation of natural killer cell activation
Y	0032991	cellular_component	protein-containing complex
Y	0034644	biological_process	cellular response to UV
Y	0035861	cellular_component	site of double-strand break
Y	0040029	biological_process	epigenetic regulation of gene expression
Y	0042127	biological_process	regulation of cell population proliferation
Y	0042752	biological_process	regulation of circadian rhythm
Y	0042981	biological_process	regulation of apoptotic process
Y	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
Y	0044725	biological_process	epigenetic programming in the zygotic pronuclei
Y	0044877	molecular_function	protein-containing complex binding
Y	0045070	biological_process	positive regulation of viral genome replication
Y	0045722	biological_process	positive regulation of gluconeogenesis
Y	0045732	biological_process	positive regulation of protein catabolic process
Y	0045995	biological_process	regulation of embryonic development
Y	0046726	biological_process	positive regulation by virus of viral protein levels in host cell
Y	0048511	biological_process	rhythmic process
Y	0051702	biological_process	biological process involved in interaction with symbiont
Y	0060964	biological_process	regulation of miRNA-mediated gene silencing
Y	0070062	cellular_component	extracellular exosome
Y	0070914	biological_process	UV-damage excision repair
Y	0071987	molecular_function	WD40-repeat domain binding
Y	0080008	cellular_component	Cul4-RING E3 ubiquitin ligase complex
Y	0080135	biological_process	regulation of cellular response to stress
Y	0097602	molecular_function	cullin family protein binding
Y	0160072	molecular_function	ubiquitin ligase complex scaffold activity
Y	1901987	biological_process	regulation of cell cycle phase transition
Y	1901990	biological_process	regulation of mitotic cell cycle phase transition
Y	1902412	biological_process	regulation of mitotic cytokinesis
Y	1904178	biological_process	negative regulation of adipose tissue development
Y	2000036	biological_process	regulation of stem cell population maintenance
Z	0005515	molecular_function	protein binding
Z	0005634	cellular_component	nucleus
Z	0005737	cellular_component	cytoplasm
Z	0005829	cellular_component	cytosol
Z	0016020	cellular_component	membrane
Z	0016567	biological_process	protein ubiquitination
Z	0030177	biological_process	positive regulation of Wnt signaling pathway
Z	0031333	biological_process	negative regulation of protein-containing complex assembly
Z	0031334	biological_process	positive regulation of protein-containing complex assembly
Z	0031464	cellular_component	Cul4A-RING E3 ubiquitin ligase complex
Z	0031465	cellular_component	Cul4B-RING E3 ubiquitin ligase complex
Z	0034766	biological_process	negative regulation of monoatomic ion transmembrane transport
Z	0035641	biological_process	locomotory exploration behavior
Z	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
Z	0044325	molecular_function	transmembrane transporter binding
Z	0046872	molecular_function	metal ion binding
Z	0048471	cellular_component	perinuclear region of cytoplasm
Z	0060173	biological_process	limb development

Functional Information from PDB Data

site_id	AC1
Number of Residues	20
Details	binding site for residue V4M Z 501

Chain	Residue
X	GLN533
X	LYS627
Z	ASN351
Z	PRO352
Z	HIS353
Z	GLU377
Z	HIS378
Z	SER379
Z	TRP380
Z	TRP386
Z	TRP400
X	VAL535
Z	PHE402
X	ASP570
X	LYS571
X	LYS572
X	SER573
X	GLY574
X	ILE625
X	GLY626

---

site_id	AC2
Number of Residues	4
Details	binding site for residue ZN Z 502

Chain	Residue
Z	CYS323
Z	CYS326
Z	CYS391
Z	CYS394

---

site_id	AC3
Number of Residues	18
Details	binding site for residue V4M C 501

Chain	Residue
A	GLN533
A	ASP570
A	LYS571
A	LYS572
A	SER573
A	GLY574
A	ILE625
A	LYS627
C	ASN351
C	PRO352
C	HIS353
C	GLU377
C	HIS378
C	SER379
C	TRP380
C	TRP386
C	TRP400
C	PHE402

---

site_id	AC4
Number of Residues	4
Details	binding site for residue ZN C 502

Chain	Residue
C	CYS323
C	CYS326
C	CYS391
C	CYS394

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
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_FI2
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_FI3
Number of Residues	2
Details	Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"UniProtKB","id":"Q9ESW0","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	4
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)","evidences":[{"source":"PubMed","id":"28112733","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI5
Number of Residues	216
Details	Domain: {"description":"CULT","evidences":[{"source":"PROSITE-ProRule","id":"PRU01124","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI6
Number of Residues	14
Details	Binding site: {"evidences":[{"source":"PubMed","id":"25108355","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4TZ4","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---