Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

3LQQ

Structure of the CED-4 Apoptosome

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000166	molecular_function	nucleotide binding
A	0000287	molecular_function	magnesium ion binding
A	0005515	molecular_function	protein binding
A	0005524	molecular_function	ATP binding
A	0005634	cellular_component	nucleus
A	0005737	cellular_component	cytoplasm
A	0005739	cellular_component	mitochondrion
A	0005829	cellular_component	cytosol
A	0006915	biological_process	apoptotic process
A	0008303	cellular_component	caspase complex
A	0008361	biological_process	regulation of cell size
A	0008656	molecular_function	cysteine-type endopeptidase activator activity involved in apoptotic process
A	0009792	biological_process	embryo development ending in birth or egg hatching
A	0010954	biological_process	positive regulation of protein processing
A	0016020	cellular_component	membrane
A	0016505	molecular_function	peptidase activator activity involved in apoptotic process
A	0030042	biological_process	actin filament depolymerization
A	0030155	biological_process	regulation of cell adhesion
A	0031647	biological_process	regulation of protein stability
A	0032991	cellular_component	protein-containing complex
A	0040034	biological_process	regulation of development, heterochronic
A	0042802	molecular_function	identical protein binding
A	0042981	biological_process	regulation of apoptotic process
A	0043065	biological_process	positive regulation of apoptotic process
A	0043531	molecular_function	ADP binding
A	0046716	biological_process	muscle cell cellular homeostasis
A	0046872	molecular_function	metal ion binding
A	0048471	cellular_component	perinuclear region of cytoplasm
A	0048598	biological_process	embryonic morphogenesis
A	0050829	biological_process	defense response to Gram-negative bacterium
A	0051432	molecular_function	BH1 domain binding
A	0051434	molecular_function	BH3 domain binding
A	0061133	molecular_function	endopeptidase activator activity
A	0089720	molecular_function	caspase binding
A	0140608	molecular_function	cysteine-type endopeptidase activator activity
A	1900118	biological_process	negative regulation of execution phase of apoptosis
A	1902742	biological_process	apoptotic process involved in development
A	1904747	biological_process	positive regulation of apoptotic process involved in development
A	1905808	biological_process	positive regulation of synapse pruning
B	0000166	molecular_function	nucleotide binding
B	0000287	molecular_function	magnesium ion binding
B	0005515	molecular_function	protein binding
B	0005524	molecular_function	ATP binding
B	0005634	cellular_component	nucleus
B	0005737	cellular_component	cytoplasm
B	0005739	cellular_component	mitochondrion
B	0005829	cellular_component	cytosol
B	0006915	biological_process	apoptotic process
B	0008303	cellular_component	caspase complex
B	0008361	biological_process	regulation of cell size
B	0008656	molecular_function	cysteine-type endopeptidase activator activity involved in apoptotic process
B	0009792	biological_process	embryo development ending in birth or egg hatching
B	0010954	biological_process	positive regulation of protein processing
B	0016020	cellular_component	membrane
B	0016505	molecular_function	peptidase activator activity involved in apoptotic process
B	0030042	biological_process	actin filament depolymerization
B	0030155	biological_process	regulation of cell adhesion
B	0031647	biological_process	regulation of protein stability
B	0032991	cellular_component	protein-containing complex
B	0040034	biological_process	regulation of development, heterochronic
B	0042802	molecular_function	identical protein binding
B	0042981	biological_process	regulation of apoptotic process
B	0043065	biological_process	positive regulation of apoptotic process
B	0043531	molecular_function	ADP binding
B	0046716	biological_process	muscle cell cellular homeostasis
B	0046872	molecular_function	metal ion binding
B	0048471	cellular_component	perinuclear region of cytoplasm
B	0048598	biological_process	embryonic morphogenesis
B	0050829	biological_process	defense response to Gram-negative bacterium
B	0051432	molecular_function	BH1 domain binding
B	0051434	molecular_function	BH3 domain binding
B	0061133	molecular_function	endopeptidase activator activity
B	0089720	molecular_function	caspase binding
B	0140608	molecular_function	cysteine-type endopeptidase activator activity
B	1900118	biological_process	negative regulation of execution phase of apoptosis
B	1902742	biological_process	apoptotic process involved in development
B	1904747	biological_process	positive regulation of apoptotic process involved in development
B	1905808	biological_process	positive regulation of synapse pruning

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG A 601

Chain	Residue
A	SER166
A	LYS191
A	ASP250
A	ATP602

site_id	AC2
Number of Residues	17
Details	BINDING SITE FOR RESIDUE ATP A 602

Chain	Residue
A	SER166
A	VAL167
A	ARG273
A	PHE301
A	TYR305
A	PRO330
A	ALA331
A	MET334
A	THR367
A	PRO368
A	TYR369
A	MG601
A	TYR131
A	GLY162
A	SER163
A	GLY164
A	LYS165

site_id	AC3
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG B 601

Chain	Residue
B	SER166
B	LYS191
B	ASP250
B	ATP602

site_id	AC4
Number of Residues	15
Details	BINDING SITE FOR RESIDUE ATP B 602

Chain	Residue
B	TYR131
B	ALA161
B	GLY162
B	GLY164
B	LYS165
B	SER166
B	VAL167
B	ARG273
B	PRO330
B	ALA331
B	MET334
B	THR367
B	PRO368
B	TYR369
B	MG601

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	180
Details	Domain: {"description":"CARD","evidences":[{"source":"PROSITE-ProRule","id":"PRU00046","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"16208361","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"20434985","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"24065769","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"2A5Y","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3LQQ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3LQR","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4M9S","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4M9X","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4M9Y","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4M9Z","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"16208361","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"20434985","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"24065769","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"37402593","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"2A5Y","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3LQQ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4M9S","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4M9X","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4M9Y","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8JNS","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8JO0","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8JOL","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	8
Details	Binding site: {"evidences":[{"source":"PubMed","id":"16208361","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"20434985","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"24065769","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"37402593","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"2A5Y","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3LQQ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3LQR","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4M9S","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4M9X","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4M9Y","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8JNS","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8JO0","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8JOL","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"16208361","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"20434985","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"24065769","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"37402593","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"2A5Y","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3LQQ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3LQR","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4M9X","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4M9Y","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4M9Z","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8JNS","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8JO0","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8JOL","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"16208361","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"20434985","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"24065769","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"37402593","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"2A5Y","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3LQQ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3LQR","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4M9S","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4M9X","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4M9Y","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8JO0","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8JOL","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI7
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"20434985","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"3LQR","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

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