1Y0V | pdb_00001y0v

Crystal structure of anthrax edema factor (EF) in complex with calmodulin and pyrophosphate

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
L [auth M]	d1y0vm1	All alpha proteins	EF Hand-like	EF-hand	Calmodulin-like	Calmodulin	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
L [auth M]	d1y0vm2	Artifacts	Tags	Tags	Tags	N-terminal Tags	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
K [auth L]	d1y0vl1	All alpha proteins	EF Hand-like	EF-hand	Calmodulin-like	Calmodulin	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
K [auth L]	d1y0vl2	Artifacts	Tags	Tags	Tags	N-terminal Tags	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
J [auth K]	d1y0vk1	All alpha proteins	EF Hand-like	EF-hand	Calmodulin-like	Calmodulin	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
J [auth K]	d1y0vk2	Artifacts	Tags	Tags	Tags	N-terminal Tags	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
I [auth J]	d1y0vj1	All alpha proteins	EF Hand-like	EF-hand	Calmodulin-like	Calmodulin	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
I [auth J]	d1y0vj2	Artifacts	Tags	Tags	Tags	N-terminal Tags	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
H [auth I]	d1y0vi1	All alpha proteins	EF Hand-like	EF-hand	Calmodulin-like	Calmodulin	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
H [auth I]	d1y0vi2	Artifacts	Tags	Tags	Tags	N-terminal Tags	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
G [auth H]	d1y0vh1	All alpha proteins	EF Hand-like	EF-hand	Calmodulin-like	Calmodulin	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
G [auth H]	d1y0vh2	Artifacts	Tags	Tags	Tags	N-terminal Tags	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
L [auth M]	SCOP2B Superfamily	EF-hand	8034158	3001983	SCOP2B (2022-06-29)
K [auth L]	SCOP2B Superfamily	EF-hand	8034158	3001983	SCOP2B (2022-06-29)
J [auth K]	SCOP2B Superfamily	EF-hand	8034158	3001983	SCOP2B (2022-06-29)
I [auth J]	SCOP2B Superfamily	EF-hand	8034158	3001983	SCOP2B (2022-06-29)
H [auth I]	SCOP2B Superfamily	EF-hand	8034158	3001983	SCOP2B (2022-06-29)
G [auth H]	SCOP2B Superfamily	EF-hand	8034158	3001983	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	PAP/OAS1 substrate-binding domain-like	8054301	3000941	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Nucleotidyltransferase-like	8037911	3000129	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Nucleotidyltransferase-like	8037911	3000129	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	PAP/OAS1 substrate-binding domain-like	8054301	3000941	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Nucleotidyltransferase-like	8037911	3000129	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	PAP/OAS1 substrate-binding domain-like	8054301	3000941	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Nucleotidyltransferase-like	8037911	3000129	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	PAP/OAS1 substrate-binding domain-like	8054301	3000941	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Nucleotidyltransferase-like	8037911	3000129	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	PAP/OAS1 substrate-binding domain-like	8054301	3000941	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	PAP/OAS1 substrate-binding domain-like	8054301	3000941	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Nucleotidyltransferase-like	8037911	3000129	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)
L [auth M]	EF-hand_1, EF-hand_7	e1y0vM1	A: alpha bundles	X: UBC-like	H: UBC-like	T: Concanavalin A-like lectins/glucanases	F: EF-hand_1, EF-hand_7	ECOD (develop294)
L [auth M]	Lyase_aromatic	e1y0vM2	A: alpha bundles	X: UBC-like	H: UBC-like	T: Concanavalin A-like lectins/glucanases	F: Lyase_aromatic	ECOD (develop294)
K [auth L]	EF-hand_1, EF-hand_7	e1y0vL1	A: alpha bundles	X: UBC-like	H: UBC-like	T: Concanavalin A-like lectins/glucanases	F: EF-hand_1, EF-hand_7	ECOD (develop294)
K [auth L]	Lyase_aromatic	e1y0vL2	A: alpha bundles	X: UBC-like	H: UBC-like	T: Concanavalin A-like lectins/glucanases	F: Lyase_aromatic	ECOD (develop294)
J [auth K]	EF-hand_1, EF-hand_7	e1y0vK1	A: alpha bundles	X: UBC-like	H: UBC-like	T: Concanavalin A-like lectins/glucanases	F: EF-hand_1, EF-hand_7	ECOD (develop294)
J [auth K]	Lyase_aromatic	e1y0vK2	A: alpha bundles	X: UBC-like	H: UBC-like	T: Concanavalin A-like lectins/glucanases	F: Lyase_aromatic	ECOD (develop294)
I [auth J]	Lyase_aromatic	e1y0vJ1	A: alpha bundles	X: UBC-like	H: UBC-like	T: Concanavalin A-like lectins/glucanases	F: Lyase_aromatic	ECOD (develop294)
H [auth I]	Lyase_aromatic	e1y0vI1	A: alpha bundles	X: UBC-like	H: UBC-like	T: Concanavalin A-like lectins/glucanases	F: Lyase_aromatic	ECOD (develop294)
G [auth H]	Lyase_aromatic	e1y0vH1	A: alpha bundles	X: UBC-like	H: UBC-like	T: Concanavalin A-like lectins/glucanases	F: Lyase_aromatic	ECOD (develop294)
F	Sigma_1_2	e1y0vF2	A: alpha bundles	X: HTH	H: Nudix	T: winged helix domain	F: Sigma_1_2	ECOD (develop294)
F	Vinculin	e1y0vF5	A: alpha bundles	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Vinculin	ECOD (develop294)
E	Sigma_1_2	e1y0vE2	A: alpha bundles	X: HTH	H: Nudix	T: winged helix domain	F: Sigma_1_2	ECOD (develop294)
E	Vinculin	e1y0vE5	A: alpha bundles	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Vinculin	ECOD (develop294)
D	Sigma_1_2	e1y0vD2	A: alpha bundles	X: HTH	H: Nudix	T: winged helix domain	F: Sigma_1_2	ECOD (develop294)
D	Vinculin	e1y0vD5	A: alpha bundles	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Vinculin	ECOD (develop294)
C	Sigma_1_2	e1y0vC2	A: alpha bundles	X: HTH	H: Nudix	T: winged helix domain	F: Sigma_1_2	ECOD (develop294)
C	Vinculin	e1y0vC5	A: alpha bundles	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Vinculin	ECOD (develop294)
B	Sigma_1_2	e1y0vB2	A: alpha bundles	X: HTH	H: Nudix	T: winged helix domain	F: Sigma_1_2	ECOD (develop294)
B	Vinculin	e1y0vB5	A: alpha bundles	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Vinculin	ECOD (develop294)
A	Sigma_1_2	e1y0vA2	A: alpha bundles	X: HTH	H: Nudix	T: winged helix domain	F: Sigma_1_2	ECOD (develop294)
A	Vinculin	e1y0vA5	A: alpha bundles	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Vinculin	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
L [auth M]	1.10.238.10	Mainly Alpha	Orthogonal Bundle	Recoverin	domain 1	CATH (4.3.0)
K [auth L]	1.10.238.10	Mainly Alpha	Orthogonal Bundle	Recoverin	domain 1	CATH (4.3.0)
J [auth K]	1.10.238.10	Mainly Alpha	Orthogonal Bundle	Recoverin	domain 1	CATH (4.3.0)
I [auth J]	1.10.238.10	Mainly Alpha	Orthogonal Bundle	Recoverin	domain 1	CATH (4.3.0)
H [auth I]	1.10.238.10	Mainly Alpha	Orthogonal Bundle	Recoverin	domain 1	CATH (4.3.0)
G [auth H]	1.10.238.10	Mainly Alpha	Orthogonal Bundle	Recoverin	domain 1	CATH (4.3.0)
F	3.40.390.10	Alpha Beta	3-Layer(aba) Sandwich	Collagenase (Catalytic Domain)	Collagenase (Catalytic Domain)	CATH (4.3.0)
F	3.90.1760.10	Alpha Beta	Alpha-Beta Complex	Adenylylcyclase toxin fold	Anthrax toxin, edema factor, central domain	CATH (4.3.0)
F	1.20.140.60	Mainly Alpha	Up-down Bundle	Butyryl-CoA Dehydrogenase, subunit A	domain 3	CATH (4.3.0)
E	3.40.390.10	Alpha Beta	3-Layer(aba) Sandwich	Collagenase (Catalytic Domain)	Collagenase (Catalytic Domain)	CATH (4.3.0)
E	3.90.1760.10	Alpha Beta	Alpha-Beta Complex	Adenylylcyclase toxin fold	Anthrax toxin, edema factor, central domain	CATH (4.3.0)
E	1.20.140.60	Mainly Alpha	Up-down Bundle	Butyryl-CoA Dehydrogenase, subunit A	domain 3	CATH (4.3.0)
D	3.40.390.10	Alpha Beta	3-Layer(aba) Sandwich	Collagenase (Catalytic Domain)	Collagenase (Catalytic Domain)	CATH (4.3.0)
D	3.90.1760.10	Alpha Beta	Alpha-Beta Complex	Adenylylcyclase toxin fold	Anthrax toxin, edema factor, central domain	CATH (4.3.0)
D	1.20.140.60	Mainly Alpha	Up-down Bundle	Butyryl-CoA Dehydrogenase, subunit A	domain 3	CATH (4.3.0)
C	3.40.390.10	Alpha Beta	3-Layer(aba) Sandwich	Collagenase (Catalytic Domain)	Collagenase (Catalytic Domain)	CATH (4.3.0)
C	3.90.1760.10	Alpha Beta	Alpha-Beta Complex	Adenylylcyclase toxin fold	Anthrax toxin, edema factor, central domain	CATH (4.3.0)
C	1.20.140.60	Mainly Alpha	Up-down Bundle	Butyryl-CoA Dehydrogenase, subunit A	domain 3	CATH (4.3.0)
B	3.40.390.10	Alpha Beta	3-Layer(aba) Sandwich	Collagenase (Catalytic Domain)	Collagenase (Catalytic Domain)	CATH (4.3.0)
B	3.90.1760.10	Alpha Beta	Alpha-Beta Complex	Adenylylcyclase toxin fold	Anthrax toxin, edema factor, central domain	CATH (4.3.0)
B	1.20.140.60	Mainly Alpha	Up-down Bundle	Butyryl-CoA Dehydrogenase, subunit A	domain 3	CATH (4.3.0)
A	3.40.390.10	Alpha Beta	3-Layer(aba) Sandwich	Collagenase (Catalytic Domain)	Collagenase (Catalytic Domain)	CATH (4.3.0)
A	3.90.1760.10	Alpha Beta	Alpha-Beta Complex	Adenylylcyclase toxin fold	Anthrax toxin, edema factor, central domain	CATH (4.3.0)
A	1.20.140.60	Mainly Alpha	Up-down Bundle	Butyryl-CoA Dehydrogenase, subunit A	domain 3	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
G [auth H], H [auth I], I [auth J], J [auth K], K [auth L], G [auth H], H [auth I], I [auth J], J [auth K], K [auth L], L [auth M]	PF13499	EF-hand domain pair (EF-hand_7)	EF-hand domain pair		Domain
A, B, C, D, E A, B, C, D, E, F	PF20850	Oedema factor (EF), alpha-helical domain (EF_HD)	Oedema factor (EF), alpha-helical domain	This domain is found in Oedema factor (EF), the exotoxin with adenylyl cyclase activity produced by Bacillus anthracis to increase the concentration of cyclic AMP in infected host cells and disrupts intracellular signalling pathways. EF consists of f ...	This domain is found in Oedema factor (EF), the exotoxin with adenylyl cyclase activity produced by Bacillus anthracis to increase the concentration of cyclic AMP in infected host cells and disrupts intracellular signalling pathways. EF consists of four domains: a PA-binding domain (PABD), two adenylate cyclase domains (ACD) and a helical domain (HD, this entry). HD moves and forms a large clamp that almost completely encircles EF's activator calmodulin (CaM), naturally present in host cells, stabilizing a disordered loop and leading to enzyme activation [1,4].	Domain
A, B, C, D, E A, B, C, D, E, F	PF03497	Anthrax toxin LF subunit (Anthrax_toxA)	Anthrax toxin LF subunit	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
G [auth H], H [auth I], I [auth J], J [auth K], K [auth L], G [auth H], H [auth I], I [auth J], J [auth K], K [auth L], L [auth M]	Calmodulin	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding protein binding signaling receptor binding	-	protein-containing complex intracellular anatomical structure intracellular membraneless organelle actin cytoskeleton myosin complex intracellular organelle cellular anatomical structure cytoskeleton organelle membraneless organelle myosin II complex
A, B, C, D, E A, B, C, D, E, F	Calmodulin-sensitive adenylate cyclase	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding peptidase activity catalytic activity, acting on a protein metallopeptidase activity hydrolase activity catalytic activity adenyl deoxyribonucleotide binding deoxyribonucleotide binding purine deoxyribonucleotide binding dATP binding phosphorus-oxygen lyase activity cyclase activity lyase activity adenylate cyclase activity calcium- and calmodulin-responsive adenylate cyclase activity toxin activity protein binding calmodulin binding enzyme regulator activity cyclase regulator activity enzyme activator activity cyclase activator activity molecular function activator activity molecular function regulator activity adenylate cyclase regulator activity adenylate cyclase activator activity cation binding metal ion binding	ribose phosphate metabolic process nucleotide biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process cAMP biosynthetic process cyclic nucleotide metabolic process nucleobase-containing compound metabolic process ribonucleotide biosynthetic process purine nucleotide metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process cyclic nucleotide biosynthetic process phosphate-containing compound metabolic process ribose phosphate metabolic process nucleotide biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process cAMP biosynthetic process cyclic nucleotide metabolic process nucleobase-containing compound metabolic process ribonucleotide biosynthetic process purine nucleotide metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process cyclic nucleotide biosynthetic process phosphate-containing compound metabolic process small molecule metabolic process phosphorus metabolic process ribose phosphate biosynthetic process nucleoside phosphate metabolic process carbohydrate derivative biosynthetic process cAMP metabolic process cyclic purine nucleotide metabolic process primary metabolic process nucleotide metabolic process nucleobase-containing compound biosynthetic process purine-containing compound metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process nucleoside phosphate biosynthetic process metabolic process cellular process purine ribonucleotide metabolic process purine nucleotide biosynthetic process symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host process symbiont-mediated cAMP intoxication of host cell symbiont-mediated perturbation of host signal transduction pathway modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction	cellular anatomical structure extracellular region protein-containing complex catalytic complex host cellular component host intracellular part host cell cytoplasm host cell part host intracellular region host cell cytosol other organism part host cell cytoplasm part

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
G [auth H], H [auth I], I [auth J], J [auth K], K [auth L], G [auth H], H [auth I], I [auth J], J [auth K], K [auth L], L [auth M]	IPR050230	Calmodulin/Myosin light chain/Troponin C-like	Family
G [auth H], H [auth I], I [auth J], J [auth K], K [auth L], G [auth H], H [auth I], I [auth J], J [auth K], K [auth L], L [auth M]	IPR018247	EF-Hand 1, calcium-binding site	Binding Site
G [auth H], H [auth I], I [auth J], J [auth K], K [auth L], G [auth H], H [auth I], I [auth J], J [auth K], K [auth L], L [auth M]	IPR002048	EF-hand domain	Domain
G [auth H], H [auth I], I [auth J], J [auth K], K [auth L], G [auth H], H [auth I], I [auth J], J [auth K], K [auth L], L [auth M]	IPR011992	EF-hand domain pair	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR005165	Anthrax toxin, edema factor, central	Domain
A, B, C, D, E A, B, C, D, E, F	IPR024079	Metallopeptidase, catalytic domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR035099	Anthrax toxin, edema factor, C-terminal	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR003541	Anthrax toxin, lethal/endema factor	Family
A, B, C, D, E A, B, C, D, E, F	IPR014781	Anthrax toxin, lethal/endema factor, N-/C-terminal	Domain
A, B, C, D, E A, B, C, D, E, F	IPR037017	Anthrax toxin, edema factor, central domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR047568	Anthrax toxin lethal factor-like domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR049405	Edema factor, alpha-helical domain	Domain