Annotations: 5JUY

Active human apoptosome with procaspase-9

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
R	SCOP2B Superfamily	DEATH domain	8037989	3000069	SCOP2B (2022-06-29)
Q	SCOP2B Superfamily	DEATH domain	8037989	3000069	SCOP2B (2022-06-29)
P	SCOP2B Superfamily	DEATH domain	8037989	3000069	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	DEATH domain	8037989	3000069	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	Cytochrome c	8068519	3000815	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	Cytochrome c	8068519	3000815	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	Cytochrome c	8068519	3000815	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Cytochrome c	8068519	3000815	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Cytochrome c	8068519	3000815	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Cytochrome c	8068519	3000815	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Cytochrome c	8068519	3000815	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	DEATH domain	8037979	3000069	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	DEATH domain	8037979	3000069	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	DEATH domain	8037979	3000069	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	DEATH domain	8037979	3000069	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
R		e5juyR1	A: alpha arrays	X: Alkaline phosphatase-like	H: Alkaline phosphatase-like	T: Alkaline phosphatase-like	F:	ECOD (v295.2)
Q		e5juyQ1	A: alpha arrays	X: Alkaline phosphatase-like	H: Alkaline phosphatase-like	T: Alkaline phosphatase-like	F:	ECOD (v295.2)
P		e5juyP1	A: alpha arrays	X: Alkaline phosphatase-like	H: Alkaline phosphatase-like	T: Alkaline phosphatase-like	F:	ECOD (v295.2)
O		e5juyO1	A: alpha arrays	X: Alkaline phosphatase-like	H: Alkaline phosphatase-like	T: Alkaline phosphatase-like	F:	ECOD (v295.2)
N		e5juyN1	A: alpha arrays	X: Alkaline phosphatase-like	H: Alkaline phosphatase-like	T: Alkaline phosphatase-like	F:	ECOD (v295.2)
M		e5juyM1	A: alpha arrays	X: Alkaline phosphatase-like	H: Alkaline phosphatase-like	T: Alkaline phosphatase-like	F:	ECOD (v295.2)
L		e5juyL1	A: alpha arrays	X: Alkaline phosphatase-like	H: Alkaline phosphatase-like	T: Alkaline phosphatase-like	F:	ECOD (v295.2)
K		e5juyK1	A: alpha arrays	X: Alkaline phosphatase-like	H: Alkaline phosphatase-like	T: Alkaline phosphatase-like	F:	ECOD (v295.2)
J		e5juyJ1	A: alpha arrays	X: Alkaline phosphatase-like	H: Alkaline phosphatase-like	T: Alkaline phosphatase-like	F:	ECOD (v295.2)
I		e5juyI1	A: alpha arrays	X: Alkaline phosphatase-like	H: Alkaline phosphatase-like	T: Alkaline phosphatase-like	F:	ECOD (v295.2)
H		e5juyH1	A: alpha arrays	X: Alkaline phosphatase-like	H: Alkaline phosphatase-like	T: Alkaline phosphatase-like	F:	ECOD (v295.2)
G		e5juyG3	A: alpha arrays	X: Alkaline phosphatase-like	H: Alkaline phosphatase-like	T: Alkaline phosphatase-like	F:	ECOD (v295.2)
G	WD40	e5juyG8	A: alpha arrays	X: P-loop domains-like	H: Cas7-related	T: CRISPR-associated protein Cas7f/Csy3	F: WD40	ECOD (v295.2)
F		e5juyF1	A: alpha arrays	X: Alkaline phosphatase-like	H: Alkaline phosphatase-like	T: Alkaline phosphatase-like	F:	ECOD (v295.2)
F	WD40	e5juyF6	A: alpha arrays	X: P-loop domains-like	H: Cas7-related	T: CRISPR-associated protein Cas7f/Csy3	F: WD40	ECOD (v295.2)
E		e5juyE3	A: alpha arrays	X: Alkaline phosphatase-like	H: Alkaline phosphatase-like	T: Alkaline phosphatase-like	F:	ECOD (v295.2)
E	WD40	e5juyE8	A: alpha arrays	X: P-loop domains-like	H: Cas7-related	T: CRISPR-associated protein Cas7f/Csy3	F: WD40	ECOD (v295.2)
D		e5juyD3	A: alpha arrays	X: Alkaline phosphatase-like	H: Alkaline phosphatase-like	T: Alkaline phosphatase-like	F:	ECOD (v295.2)
D	WD40	e5juyD8	A: alpha arrays	X: P-loop domains-like	H: Cas7-related	T: CRISPR-associated protein Cas7f/Csy3	F: WD40	ECOD (v295.2)
C		e5juyC1	A: alpha arrays	X: Alkaline phosphatase-like	H: Alkaline phosphatase-like	T: Alkaline phosphatase-like	F:	ECOD (v295.2)
C	WD40	e5juyC6	A: alpha arrays	X: P-loop domains-like	H: Cas7-related	T: CRISPR-associated protein Cas7f/Csy3	F: WD40	ECOD (v295.2)
B		e5juyB3	A: alpha arrays	X: Alkaline phosphatase-like	H: Alkaline phosphatase-like	T: Alkaline phosphatase-like	F:	ECOD (v295.2)
B	WD40	e5juyB8	A: alpha arrays	X: P-loop domains-like	H: Cas7-related	T: CRISPR-associated protein Cas7f/Csy3	F: WD40	ECOD (v295.2)
A		e5juyA1	A: alpha arrays	X: Alkaline phosphatase-like	H: Alkaline phosphatase-like	T: Alkaline phosphatase-like	F:	ECOD (v295.2)
A	WD40	e5juyA5	A: alpha arrays	X: P-loop domains-like	H: Cas7-related	T: CRISPR-associated protein Cas7f/Csy3	F: WD40	ECOD (v295.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
O, P, Q, R	PF00619	Caspase recruitment domain (CARD)	Caspase recruitment domain	Motif contained in proteins involved in apoptotic signaling. Predicted to possess a DEATH (Pfam:PF00531) domain-like fold .	Domain
H, I, J, K, L H, I, J, K, L, M, N	PF00034	Cytochrome c (Cytochrom_C)	Cytochrome c	The Pfam entry does not include all Prosite members. The cytochrome 556 and cytochrome c' families are not included. All these are now in a new clan together. The C-terminus of DUF989, Pfam:PF06181, has now been merged into this family.	Domain
A, B, C, D, E A, B, C, D, E, F, G	PF00931	NB-ARC domain (NB-ARC)	NB-ARC domain		Domain
A, B, C, D, E A, B, C, D, E, F, G	PF21296	Apoptotic protease-activating factor 1-like, winged-helix domain (WHD_APAF1)	Apoptotic protease-activating factor 1-like, winged-helix domain	This domain is found in Apoptotic protease-activating factor 1 from Mus musculus (APAF-1), responsible to ignite the downstream cascade of caspases in the mitochondrial pathway of apoptosis. This entry represents the winged-helix domain (WHD) [1-5]. ...	This domain is found in Apoptotic protease-activating factor 1 from Mus musculus (APAF-1), responsible to ignite the downstream cascade of caspases in the mitochondrial pathway of apoptosis. This entry represents the winged-helix domain (WHD) [1-5].	Domain
A, B, C, D, E A, B, C, D, E, F, G	PF17908	APAF-1 helical domain (APAF1_C)	APAF-1 helical domain	This domain represents the C-terminal alpha helical domain of the apoptotic Apaf-1 protein.	Domain
A, B, C, D, E A, B, C, D, E, F, G	PF00619	Caspase recruitment domain (CARD)	Caspase recruitment domain	Motif contained in proteins involved in apoptotic signaling. Predicted to possess a DEATH (Pfam:PF00531) domain-like fold .	Domain
A, B, C, D, E A, B, C, D, E, F, G	PF00400	WD domain, G-beta repeat (WD40)	WD domain, G-beta repeat	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
O, P, Q, R	Caspase-9	peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity cysteine-type peptidase activity cysteine-type endopeptidase activity endopeptidase activity enzyme regulator activity enzyme activator activity molecular function activator activity molecular function regulator activity protein binding binding kinase binding peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity cysteine-type peptidase activity cysteine-type endopeptidase activity endopeptidase activity enzyme regulator activity enzyme activator activity molecular function activator activity molecular function regulator activity protein binding binding kinase binding enzyme binding protein kinase binding identical protein binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process leukocyte apoptotic process apoptotic process cell death programmed cell death regulation of biological process regulation of cellular process signaling biological regulation cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process leukocyte apoptotic process apoptotic process cell death programmed cell death regulation of biological process regulation of cellular process signaling biological regulation intracellular signal transduction cell communication signal transduction in response to DNA damage signal transduction apoptotic signaling pathway intrinsic apoptotic signaling pathway response to ischemia glial cell apoptotic process positive regulation of programmed cell death regulation of apoptotic process positive regulation of biological process regulation of programmed cell death positive regulation of apoptotic process positive regulation of cellular process neuron apoptotic process positive regulation of neuron apoptotic process regulation of neuron apoptotic process primary metabolic process gene expression macromolecule biosynthetic process protein maturation biosynthetic process proteolysis protein processing metabolic process protein metabolic process macromolecule metabolic process regulation of execution phase of apoptosis positive regulation of execution phase of apoptosis execution phase of apoptosis response to chemical response to anesthetic response to ketone response to lipid cellular response to endogenous stimulus response to hormone response to steroid hormone cellular response to ketone cellular response to steroid hormone stimulus cellular response to hormone stimulus response to endogenous stimulus cellular response to dexamethasone stimulus response to glucocorticoid cellular response to glucocorticoid stimulus response to oxygen-containing compound cellular response to oxygen-containing compound cellular response to corticosteroid stimulus response to corticosteroid cellular response to chemical stimulus cellular response to lipid response to dexamethasone response to alcohol response to ethanol intrinsic apoptotic signaling pathway in response to DNA damage developmental process cellular developmental process hemopoiesis platelet morphogenesis cell development cell morphogenesis anatomical structure morphogenesis myeloid cell differentiation cell differentiation platelet formation anatomical structure development anatomical structure formation involved in morphogenesis response to light stimulus cellular response to radiation response to UV cellular response to environmental stimulus cellular response to light stimulus response to radiation response to abiotic stimulus cellular response to abiotic stimulus cellular response to UV response to indole-3-methanol response to nitrogen compound response to decreased oxygen levels response to hypoxia response to oxygen levels multicellular organism development multicellular organismal process animal organ development kidney development animal gross anatomical part developmental process renal system development system development response to cobalt ion response to metal ion biological process involved in interspecies interaction between organisms response to other organism response to external stimulus response to lipopolysaccharide response to biotic stimulus response to bacterium response to external biotic stimulus response to molecule of bacterial origin response to estradiol	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle cytosol protein-containing complex apoptosome nucleus
H, I, J, K, L H, I, J, K, L, M, N	Cytochrome c	binding tetrapyrrole binding heme binding electron transfer activity cation binding ion binding metal ion binding small molecule binding	cellular process apoptotic process cell death programmed cell death aerobic respiration cellular respiration aerobic electron transport chain oxidative phosphorylation energy derivation by oxidation of organic compounds ATP synthesis coupled electron transport electron transport chain generation of precursor metabolites and energy mitochondrial electron transport, cytochrome c to oxygen respiratory electron transport chain cellular process apoptotic process cell death programmed cell death aerobic respiration cellular respiration aerobic electron transport chain oxidative phosphorylation energy derivation by oxidation of organic compounds ATP synthesis coupled electron transport electron transport chain generation of precursor metabolites and energy mitochondrial electron transport, cytochrome c to oxygen respiratory electron transport chain metabolic process mitochondrial ATP synthesis coupled electron transport mitochondrial electron transport, ubiquinol to cytochrome c	membrane-bounded organelle intracellular anatomical structure mitochondrial intermembrane space mitochondrion membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen organelle envelope lumen intracellular organelle organelle envelope cellular anatomical structure organelle lumen organelle mitochondrial envelope membrane-bounded organelle intracellular anatomical structure mitochondrial intermembrane space mitochondrion membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen organelle envelope lumen intracellular organelle organelle envelope cellular anatomical structure organelle lumen organelle mitochondrial envelope cytoplasm
A, B, C, D, E A, B, C, D, E, F, G	Apoptotic protease-activating factor 1	binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding cysteine-type endopeptidase activator activity endopeptidase activator activity enzyme regulator activity enzyme activator activity peptidase regulator activity molecular function activator activity molecular function regulator activity peptidase activator activity endopeptidase regulator activity binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding cysteine-type endopeptidase activator activity endopeptidase activator activity enzyme regulator activity enzyme activator activity peptidase regulator activity molecular function activator activity molecular function regulator activity peptidase activator activity endopeptidase regulator activity protein binding heat shock protein binding adenyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding carbohydrate derivative binding ribonucleotide binding ADP binding cysteine-type endopeptidase activator activity involved in apoptotic process cysteine-type endopeptidase regulator activity involved in apoptotic process peptidase activator activity involved in apoptotic process identical protein binding	developmental process cellular developmental process cell differentiation cellular process cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation cell death intracellular signal transduction cell communication apoptotic signaling pathway developmental process cellular developmental process cell differentiation cellular process cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation cell death intracellular signal transduction cell communication apoptotic signaling pathway signal transduction apoptotic process intrinsic apoptotic signaling pathway programmed cell death cellular response to endogenous stimulus cellular response to growth factor stimulus response to transforming growth factor beta cellular response to transforming growth factor beta stimulus response to endogenous stimulus response to growth factor positive regulation of programmed cell death regulation of apoptotic process positive regulation of biological process regulation of programmed cell death positive regulation of apoptotic process positive regulation of cellular process response to G1 DNA damage checkpoint signaling response to mitotic cell cycle checkpoint signaling response to biotic stimulus cellular response to biotic stimulus response to DNA integrity checkpoint signaling response to DNA damage checkpoint signaling response to cell cycle checkpoint signaling multicellular organism development multicellular organismal process anatomical structure development nervous system development animal gross anatomical part developmental process system development response to decreased oxygen levels response to hypoxia response to stress response to oxygen levels response to abiotic stimulus intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress cellular response to stress response to endoplasmic reticulum stress response to nutrient levels response to chemical response to nutrient animal organ development kidney development renal system development muscle cell apoptotic process striated muscle cell apoptotic process cardiac muscle cell apoptotic process	extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol membrane-enclosed lumen intracellular vesicle extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol membrane-enclosed lumen intracellular vesicle ficolin-1-rich granule intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen intracellular organelle organelle lumen cytoplasmic vesicle ficolin-1-rich granule lumen secretory granule secretory vesicle protein-containing complex apoptosome vesicle lumen cytoplasmic vesicle lumen secretory granule lumen nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
O, P, Q, R	IPR001309	Peptidase C14, p20 domain	Domain
O, P, Q, R	IPR011600	Peptidase C14, caspase domain	Domain
O, P, Q, R	IPR016129	Peptidase family C14A, His active site	Active Site
O, P, Q, R	IPR042147	CASP9, CARD domain	Domain
O, P, Q, R	IPR015917	Peptidase C14A, caspase catalytic domain	Domain
O, P, Q, R	IPR011029	Death-like domain superfamily	Homologous Superfamily
O, P, Q, R	IPR029030	Caspase-like domain superfamily	Homologous Superfamily
O, P, Q, R	IPR033139	Peptidase family C14A, cysteine active site	Active Site
O, P, Q, R	IPR002138	Peptidase C14, caspase non-catalytic subunit p10	Domain
O, P, Q, R	IPR001315	CARD domain	Domain
O, P, Q, R	IPR002398	Peptidase C14 family	Family
H, I, J, K, L H, I, J, K, L, M, N	IPR036909	Cytochrome c-like domain superfamily	Homologous Superfamily
H, I, J, K, L H, I, J, K, L, M, N	IPR009056	Cytochrome c-like domain	Domain
H, I, J, K, L H, I, J, K, L, M, N	IPR002327	Cytochrome c, class IA/ IB	Family
A, B, C, D, E A, B, C, D, E, F, G	IPR041452	APAF-1 helical domain	Domain
A, B, C, D, E A, B, C, D, E, F, G	IPR019775	WD40 repeat, conserved site	Conserved Site
A, B, C, D, E A, B, C, D, E, F, G	IPR020472	PAC1/LIS1-like, WD-40 repeat	Repeat
A, B, C, D, E A, B, C, D, E, F, G	IPR037963	Apoptotic Protease-Activating Factor 1, CARD domain	Domain
A, B, C, D, E A, B, C, D, E, F, G	IPR002182	NB-ARC	Domain
A, B, C, D, E A, B, C, D, E, F, G	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G	IPR011029	Death-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G	IPR042197	Apoptotic protease-activating factors, helical domain	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G	IPR048975	Apoptotic protease-activating factor 1, winged-helix domain	Domain
A, B, C, D, E A, B, C, D, E, F, G	IPR001680	WD40 repeat	Repeat
A, B, C, D, E A, B, C, D, E, F, G	IPR056153	IFT122/SMU1, beta-propeller domain	Domain
A, B, C, D, E A, B, C, D, E, F, G	IPR001315	CARD domain	Domain
A, B, C, D, E A, B, C, D, E, F, G	IPR017251	Apoptotic protease-activating factor 1	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
O, P, Q, R	: P55211	retinal detachment transient ischemic attack brain ischemia peripheral nervous system disease prostate cancer Edema peripheral neuropathy nervous system disorder tuberculosis adrenal cortex carcinoma cancer intestinal disease lymphatic system disease alcoholic pancreatitis liver disease retinal detachment transient ischemic attack brain ischemia peripheral nervous system disease prostate cancer Edema peripheral neuropathy nervous system disorder tuberculosis adrenal cortex carcinoma cancer intestinal disease lymphatic system disease alcoholic pancreatitis liver disease breast disease hematologic disease lung disease
A, B, C, D, E A, B, C, D, E, F, G	: O14727	transitional cell carcinoma renal cell carcinoma retinal detachment Skin Abnormalities collecting duct carcinoma sarcomatoid renal cell carcinoma chromophobe renal cell carcinoma papillary renal cell carcinoma adrenal cortex carcinoma clear cell renal carcinoma hepatocellular carcinoma malignant pancreatic neoplasm pancreatic intraductal papillary-mucinous neoplasm renal carcinoma cancer transitional cell carcinoma renal cell carcinoma retinal detachment Skin Abnormalities collecting duct carcinoma sarcomatoid renal cell carcinoma chromophobe renal cell carcinoma papillary renal cell carcinoma adrenal cortex carcinoma clear cell renal carcinoma hepatocellular carcinoma malignant pancreatic neoplasm pancreatic intraductal papillary-mucinous neoplasm renal carcinoma cancer exocrine pancreatic carcinoma medulloblastoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia major depressive disorder osteosarcoma