Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

5FQD

Structural basis of Lenalidomide induced CK1a degradation by the crl4crbn ubiquitin ligase

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0003676	molecular_function	nucleic acid binding
A	0005634	cellular_component	nucleus
B	0005515	molecular_function	protein binding
B	0005634	cellular_component	nucleus
B	0005737	cellular_component	cytoplasm
B	0005829	cellular_component	cytosol
B	0016020	cellular_component	membrane
B	0016567	biological_process	protein ubiquitination
B	0030177	biological_process	positive regulation of Wnt signaling pathway
B	0031333	biological_process	negative regulation of protein-containing complex assembly
B	0031334	biological_process	positive regulation of protein-containing complex assembly
B	0031464	cellular_component	Cul4A-RING E3 ubiquitin ligase complex
B	0034766	biological_process	negative regulation of monoatomic ion transmembrane transport
B	0035641	biological_process	locomotory exploration behavior
B	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
B	0044325	molecular_function	transmembrane transporter binding
B	0046872	molecular_function	metal ion binding
B	0048471	cellular_component	perinuclear region of cytoplasm
C	0000775	cellular_component	chromosome, centromeric region
C	0000776	cellular_component	kinetochore
C	0004672	molecular_function	protein kinase activity
C	0004674	molecular_function	protein serine/threonine kinase activity
C	0004676	molecular_function	3-phosphoinositide-dependent protein kinase activity
C	0004677	molecular_function	DNA-dependent protein kinase activity
C	0004679	molecular_function	AMP-activated protein kinase activity
C	0004694	molecular_function	eukaryotic translation initiation factor 2alpha kinase activity
C	0004711	molecular_function	ribosomal protein S6 kinase activity
C	0005515	molecular_function	protein binding
C	0005524	molecular_function	ATP binding
C	0005634	cellular_component	nucleus
C	0005694	cellular_component	chromosome
C	0005737	cellular_component	cytoplasm
C	0005813	cellular_component	centrosome
C	0005819	cellular_component	spindle
C	0005829	cellular_component	cytosol
C	0005847	cellular_component	mRNA cleavage and polyadenylation specificity factor complex
C	0005856	cellular_component	cytoskeleton
C	0005929	cellular_component	cilium
C	0006338	biological_process	chromatin remodeling
C	0006468	biological_process	protein phosphorylation
C	0007030	biological_process	Golgi organization
C	0007165	biological_process	signal transduction
C	0007166	biological_process	cell surface receptor signaling pathway
C	0016020	cellular_component	membrane
C	0016055	biological_process	Wnt signaling pathway
C	0016607	cellular_component	nuclear speck
C	0018105	biological_process	peptidyl-serine phosphorylation
C	0019082	biological_process	viral protein processing
C	0030877	cellular_component	beta-catenin destruction complex
C	0031670	biological_process	cellular response to nutrient
C	0032436	biological_process	positive regulation of proteasomal ubiquitin-dependent protein catabolic process
C	0035025	biological_process	positive regulation of Rho protein signal transduction
C	0035175	molecular_function	histone H3S10 kinase activity
C	0035402	molecular_function	histone H3T11 kinase activity
C	0035403	molecular_function	histone H3T6 kinase activity
C	0035979	molecular_function	histone H2AXS139 kinase activity
C	0036064	cellular_component	ciliary basal body
C	0042995	cellular_component	cell projection
C	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
C	0044022	molecular_function	histone H3S28 kinase activity
C	0044023	molecular_function	histone H4S1 kinase activity
C	0044024	molecular_function	histone H2AS1 kinase activity
C	0044025	molecular_function	histone H2BS14 kinase activity
C	0045095	cellular_component	keratin filament
C	0045104	biological_process	intermediate filament cytoskeleton organization
C	0051301	biological_process	cell division
C	0072354	molecular_function	histone H3T3 kinase activity
C	0072371	molecular_function	histone H2AS121 kinase activity
C	0072518	molecular_function	Rho-dependent protein serine/threonine kinase activity
C	0090090	biological_process	negative regulation of canonical Wnt signaling pathway
C	0106310	molecular_function	protein serine kinase activity
C	0140823	molecular_function	histone H2BS36 kinase activity
C	0140855	molecular_function	histone H3S57 kinase activity
C	0140857	molecular_function	histone H3T45 kinase activity
C	1900226	biological_process	negative regulation of NLRP3 inflammasome complex assembly
C	1904263	biological_process	positive regulation of TORC1 signaling
C	1990244	molecular_function	histone H2AT120 kinase activity
D	0003676	molecular_function	nucleic acid binding
D	0005634	cellular_component	nucleus
E	0005515	molecular_function	protein binding
E	0005634	cellular_component	nucleus
E	0005737	cellular_component	cytoplasm
E	0005829	cellular_component	cytosol
E	0016020	cellular_component	membrane
E	0016567	biological_process	protein ubiquitination
E	0030177	biological_process	positive regulation of Wnt signaling pathway
E	0031333	biological_process	negative regulation of protein-containing complex assembly
E	0031334	biological_process	positive regulation of protein-containing complex assembly
E	0031464	cellular_component	Cul4A-RING E3 ubiquitin ligase complex
E	0034766	biological_process	negative regulation of monoatomic ion transmembrane transport
E	0035641	biological_process	locomotory exploration behavior
E	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
E	0044325	molecular_function	transmembrane transporter binding
E	0046872	molecular_function	metal ion binding
E	0048471	cellular_component	perinuclear region of cytoplasm
F	0000775	cellular_component	chromosome, centromeric region
F	0000776	cellular_component	kinetochore
F	0004672	molecular_function	protein kinase activity
F	0004674	molecular_function	protein serine/threonine kinase activity
F	0004676	molecular_function	3-phosphoinositide-dependent protein kinase activity
F	0004677	molecular_function	DNA-dependent protein kinase activity
F	0004679	molecular_function	AMP-activated protein kinase activity
F	0004694	molecular_function	eukaryotic translation initiation factor 2alpha kinase activity
F	0004711	molecular_function	ribosomal protein S6 kinase activity
F	0005515	molecular_function	protein binding
F	0005524	molecular_function	ATP binding
F	0005634	cellular_component	nucleus
F	0005694	cellular_component	chromosome
F	0005737	cellular_component	cytoplasm
F	0005813	cellular_component	centrosome
F	0005819	cellular_component	spindle
F	0005829	cellular_component	cytosol
F	0005847	cellular_component	mRNA cleavage and polyadenylation specificity factor complex
F	0005856	cellular_component	cytoskeleton
F	0005929	cellular_component	cilium
F	0006338	biological_process	chromatin remodeling
F	0006468	biological_process	protein phosphorylation
F	0007030	biological_process	Golgi organization
F	0007165	biological_process	signal transduction
F	0007166	biological_process	cell surface receptor signaling pathway
F	0016020	cellular_component	membrane
F	0016055	biological_process	Wnt signaling pathway
F	0016607	cellular_component	nuclear speck
F	0018105	biological_process	peptidyl-serine phosphorylation
F	0019082	biological_process	viral protein processing
F	0030877	cellular_component	beta-catenin destruction complex
F	0031670	biological_process	cellular response to nutrient
F	0032436	biological_process	positive regulation of proteasomal ubiquitin-dependent protein catabolic process
F	0035025	biological_process	positive regulation of Rho protein signal transduction
F	0035175	molecular_function	histone H3S10 kinase activity
F	0035402	molecular_function	histone H3T11 kinase activity
F	0035403	molecular_function	histone H3T6 kinase activity
F	0035979	molecular_function	histone H2AXS139 kinase activity
F	0036064	cellular_component	ciliary basal body
F	0042995	cellular_component	cell projection
F	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
F	0044022	molecular_function	histone H3S28 kinase activity
F	0044023	molecular_function	histone H4S1 kinase activity
F	0044024	molecular_function	histone H2AS1 kinase activity
F	0044025	molecular_function	histone H2BS14 kinase activity
F	0045095	cellular_component	keratin filament
F	0045104	biological_process	intermediate filament cytoskeleton organization
F	0051301	biological_process	cell division
F	0072354	molecular_function	histone H3T3 kinase activity
F	0072371	molecular_function	histone H2AS121 kinase activity
F	0072518	molecular_function	Rho-dependent protein serine/threonine kinase activity
F	0090090	biological_process	negative regulation of canonical Wnt signaling pathway
F	0106310	molecular_function	protein serine kinase activity
F	0140823	molecular_function	histone H2BS36 kinase activity
F	0140855	molecular_function	histone H3S57 kinase activity
F	0140857	molecular_function	histone H3T45 kinase activity
F	1900226	biological_process	negative regulation of NLRP3 inflammasome complex assembly
F	1904263	biological_process	positive regulation of TORC1 signaling
F	1990244	molecular_function	histone H2AT120 kinase activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	BINDING SITE FOR RESIDUE ZN B 1437

Chain	Residue
B	CYS323
B	CYS326
B	CYS391
B	CYS394

site_id	AC2
Number of Residues	4
Details	BINDING SITE FOR RESIDUE ZN E 1437

Chain	Residue
E	CYS323
E	CYS326
E	CYS391
E	CYS394

site_id	AC3
Number of Residues	13
Details	BINDING SITE FOR RESIDUE LVY B 1438

Chain	Residue
B	PRO352
B	HIS353
B	GLU377
B	HIS378
B	SER379
B	TRP380
B	TRP386
B	TRP400
B	PHE402
C	ILE35
C	ASN39
C	GLY40
B	ASN351

site_id	AC4
Number of Residues	15
Details	BINDING SITE FOR RESIDUE LVY E 1438

Chain	Residue
E	ASN351
E	PRO352
E	HIS353
E	GLU377
E	HIS378
E	SER379
E	TRP380
E	TRP386
E	TRP400
E	PHE402
F	ILE35
F	ILE37
F	THR38
F	ASN39
F	GLY40

Functional Information from PROSITE/UniProt

site_id	PS00107
Number of Residues	24
Details	PROTEIN_KINASE_ATP Protein kinases ATP-binding region signature. IGSGSFGDIYlAinitngee..........VAVK

Chain	Residue	Details
C	ILE23-LYS46

site_id	PS00108
Number of Residues	13
Details	PROTEIN_KINASE_ST Serine/Threonine protein kinases active-site signature. FiHrDIKpdNFLM

Chain	Residue	Details
C	PHE132-MET144

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	2
Details	ACT_SITE: Proton acceptor => ECO:0000255\|PROSITE-ProRule:PRU00159, ECO:0000255\|PROSITE-ProRule:PRU10027

Chain	Residue	Details
C	ASP136
E	HIS378
E	TRP380
E	TRP386
E	CYS391
E	CYS394
F	ASP136
B	HIS378
B	TRP380
B	TRP386
B	CYS391
B	CYS394
E	CYS323
E	CYS326

site_id	SWS_FT_FI2
Number of Residues	4
Details	BINDING: BINDING => ECO:0000255\|PROSITE-ProRule:PRU00159

Chain	Residue	Details
C	ILE23
C	LYS46
F	ILE23
F	LYS46

site_id	SWS_FT_FI3
Number of Residues	2
Details	MOD_RES: N-acetylalanine => ECO:0007744\|PubMed:19369195, ECO:0007744\|PubMed:22814378

Chain	Residue	Details
C	ALA2
F	ALA2

site_id	SWS_FT_FI4
Number of Residues	2
Details	MOD_RES: Phosphoserine => ECO:0007744\|PubMed:23186163

Chain	Residue	Details
C	SER4
F	SER4
D	LYS1121

site_id	SWS_FT_FI5
Number of Residues	2
Details	MOD_RES: N6-acetyllysine => ECO:0007744\|PubMed:19608861

Chain	Residue	Details
C	LYS8
F	LYS8

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)