Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

6R7N

Structural basis of Cullin-2 RING E3 ligase regulation by the COP9 signalosome

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000338	biological_process	protein deneddylation
A	0005095	molecular_function	GTPase inhibitor activity
A	0005515	molecular_function	protein binding
A	0005634	cellular_component	nucleus
A	0005654	cellular_component	nucleoplasm
A	0005737	cellular_component	cytoplasm
A	0005829	cellular_component	cytosol
A	0007254	biological_process	JNK cascade
A	0008180	cellular_component	COP9 signalosome
A	0032991	cellular_component	protein-containing complex
A	0045116	biological_process	protein neddylation
A	2000434	biological_process	regulation of protein neddylation
B	0000122	biological_process	negative regulation of transcription by RNA polymerase II
B	0000338	biological_process	protein deneddylation
B	0001833	biological_process	inner cell mass cell proliferation
B	0001834	biological_process	trophectodermal cell proliferation
B	0003714	molecular_function	transcription corepressor activity
B	0005515	molecular_function	protein binding
B	0005634	cellular_component	nucleus
B	0005654	cellular_component	nucleoplasm
B	0005737	cellular_component	cytoplasm
B	0005829	cellular_component	cytosol
B	0006366	biological_process	transcription by RNA polymerase II
B	0006468	biological_process	protein phosphorylation
B	0007165	biological_process	signal transduction
B	0008180	cellular_component	COP9 signalosome
B	0030182	biological_process	neuron differentiation
B	0032991	cellular_component	protein-containing complex
B	0035914	biological_process	skeletal muscle cell differentiation
B	0045116	biological_process	protein neddylation
B	0045892	biological_process	negative regulation of DNA-templated transcription
B	2000434	biological_process	regulation of protein neddylation
C	0000338	biological_process	protein deneddylation
C	0001701	biological_process	in utero embryonic development
C	0005515	molecular_function	protein binding
C	0005634	cellular_component	nucleus
C	0005654	cellular_component	nucleoplasm
C	0005737	cellular_component	cytoplasm
C	0005829	cellular_component	cytosol
C	0006511	biological_process	ubiquitin-dependent protein catabolic process
C	0007165	biological_process	signal transduction
C	0008180	cellular_component	COP9 signalosome
C	0009416	biological_process	response to light stimulus
C	0032991	cellular_component	protein-containing complex
C	0045116	biological_process	protein neddylation
C	0048471	cellular_component	perinuclear region of cytoplasm
C	1902162	biological_process	regulation of DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator
C	2000434	biological_process	regulation of protein neddylation
D	0000338	biological_process	protein deneddylation
D	0005515	molecular_function	protein binding
D	0005634	cellular_component	nucleus
D	0005654	cellular_component	nucleoplasm
D	0005737	cellular_component	cytoplasm
D	0005829	cellular_component	cytosol
D	0008021	cellular_component	synaptic vesicle
D	0008180	cellular_component	COP9 signalosome
D	0016607	cellular_component	nuclear speck
D	0019784	molecular_function	deNEDDylase activity
D	0030054	cellular_component	cell junction
D	0031410	cellular_component	cytoplasmic vesicle
D	0032991	cellular_component	protein-containing complex
D	0045116	biological_process	protein neddylation
D	0045202	cellular_component	synapse
D	2000434	biological_process	regulation of protein neddylation
G	0008180	cellular_component	COP9 signalosome
G	0010387	biological_process	COP9 signalosome assembly
H	0000338	biological_process	protein deneddylation
H	0005515	molecular_function	protein binding
H	0005634	cellular_component	nucleus
H	0005654	cellular_component	nucleoplasm
H	0005737	cellular_component	cytoplasm
H	0005829	cellular_component	cytosol
H	0006468	biological_process	protein phosphorylation
H	0007250	biological_process	activation of NF-kappaB-inducing kinase activity
H	0008180	cellular_component	COP9 signalosome
H	0008285	biological_process	negative regulation of cell population proliferation
H	0010387	biological_process	COP9 signalosome assembly
H	0045116	biological_process	protein neddylation
H	0048471	cellular_component	perinuclear region of cytoplasm
H	0070062	cellular_component	extracellular exosome
H	2000434	biological_process	regulation of protein neddylation
O	0000082	biological_process	G1/S transition of mitotic cell cycle
O	0004842	molecular_function	ubiquitin-protein transferase activity
O	0005515	molecular_function	protein binding
O	0005634	cellular_component	nucleus
O	0005654	cellular_component	nucleoplasm
O	0005730	cellular_component	nucleolus
O	0005829	cellular_component	cytosol
O	0006511	biological_process	ubiquitin-dependent protein catabolic process
O	0016567	biological_process	protein ubiquitination
O	0019005	cellular_component	SCF ubiquitin ligase complex
O	0030163	biological_process	protein catabolic process
O	0030674	molecular_function	protein-macromolecule adaptor activity
O	0030891	cellular_component	VCB complex
O	0031146	biological_process	SCF-dependent proteasomal ubiquitin-dependent protein catabolic process
O	0031461	cellular_component	cullin-RING ubiquitin ligase complex
O	0031462	cellular_component	Cul2-RING ubiquitin ligase complex
O	0031625	molecular_function	ubiquitin protein ligase binding
O	0044877	molecular_function	protein-containing complex binding
O	0097193	biological_process	intrinsic apoptotic signaling pathway
O	0140627	biological_process	ubiquitin-dependent protein catabolic process via the C-end degron rule pathway
O	0160072	molecular_function	ubiquitin ligase complex scaffold activity
P	0006368	biological_process	transcription elongation by RNA polymerase II
P	0030891	cellular_component	VCB complex
P	0070449	cellular_component	elongin complex
Q	0001222	molecular_function	transcription corepressor binding
Q	0005515	molecular_function	protein binding
Q	0005634	cellular_component	nucleus
Q	0005654	cellular_component	nucleoplasm
Q	0005829	cellular_component	cytosol
Q	0006357	biological_process	regulation of transcription by RNA polymerase II
Q	0006367	biological_process	transcription initiation at RNA polymerase II promoter
Q	0006511	biological_process	ubiquitin-dependent protein catabolic process
Q	0016567	biological_process	protein ubiquitination
Q	0030674	molecular_function	protein-macromolecule adaptor activity
Q	0031462	cellular_component	Cul2-RING ubiquitin ligase complex
Q	0031466	cellular_component	Cul5-RING ubiquitin ligase complex
Q	0070449	cellular_component	elongin complex
Q	0140958	biological_process	target-directed miRNA degradation
R	0008270	molecular_function	zinc ion binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	2
Details	binding site for residue ZN R 201

Chain	Residue
R	ASP51
R	LEU52

site_id	AC2
Number of Residues	6
Details	binding site for residue ZN R 202

Chain	Residue
R	ILE49
R	GLU66
R	GLU67
R	CYS68
R	THR69
R	VAL70

site_id	AC3
Number of Residues	3
Details	binding site for residue ZN R 203

Chain	Residue
R	PHE81
R	HIS82
R	GLU55

Functional Information from PROSITE/UniProt

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

Chain	Residue	Details
O	ILE718-ALA745

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	1
Details	MOD_RES: N-acetylalanine => ECO:0000269\|PubMed:18850735, ECO:0007744\|PubMed:19413330

Chain	Residue	Details
G	ALA2

site_id	SWS_FT_FI2
Number of Residues	11
Details	BINDING: BINDING => ECO:0000269\|PubMed:11961546, ECO:0007744\|PDB:1LDJ, ECO:0007744\|PDB:1LDK, ECO:0007744\|PDB:1U6G, ECO:0007744\|PDB:2HYE, ECO:0007744\|PDB:3DPL, ECO:0007744\|PDB:3DQV, ECO:0007744\|PDB:3RTR, ECO:0007744\|PDB:4F52, ECO:0007744\|PDB:4P5O

Chain	Residue	Details
R	CYS42
R	CYS94
R	ASP97
R	CYS45
R	CYS53
R	CYS56
R	CYS68
R	CYS75
R	HIS77
R	HIS80
R	HIS82

site_id	SWS_FT_FI3
Number of Residues	1
Details	BINDING: BINDING => ECO:0000269\|PubMed:11961546, ECO:0007744\|PDB:1LDJ, ECO:0007744\|PDB:1LDK, ECO:0007744\|PDB:1U6G, ECO:0007744\|PDB:2HYE, ECO:0007744\|PDB:3DQV, ECO:0007744\|PDB:3RTR, ECO:0007744\|PDB:4F52, ECO:0007744\|PDB:4P5O

Chain	Residue	Details
R	CYS83

site_id	SWS_FT_FI4
Number of Residues	1
Details	MOD_RES: Phosphoserine => ECO:0000269\|PubMed:18850735, ECO:0007744\|PubMed:18669648, ECO:0007744\|PubMed:23186163

Chain	Residue	Details
A	SER519

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)