4A2Q

Structure of duck RIG-I tandem CARDs and helicase domain

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	RecA-like P-loop NTPases	8092829	3002019	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	DEATH domain	8092826	3000069	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	DEATH domain	8092825	3000069	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	RecA-like P-loop NTPases	8092828	3002019	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	RecA-like P-loop NTPases	8092829	3002019	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	RecA-like P-loop NTPases	8092828	3002019	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	DEATH domain	8092825	3000069	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	DEATH domain	8092826	3000069	SCOP2B (2022-06-29)
C [auth D]	SCOP2 Family	CARD-like	8046077	4000308	SCOP2 (2022-06-29)
C [auth D]	SCOP2 Family	CARD-like	8092824	4000308	SCOP2 (2022-06-29)
C [auth D]	SCOP2 Family	Tandem AAA-ATPase domain	8092827	4000282	SCOP2 (2022-06-29)
C [auth D]	SCOP2 Superfamily	DEATH domain	8092825	3000069	SCOP2 (2022-06-29)
C [auth D]	SCOP2 Superfamily	DEATH domain	8092826	3000069	SCOP2 (2022-06-29)
C [auth D]	SCOP2 Superfamily	RecA-like P-loop NTPases	8092829	3002019	SCOP2 (2022-06-29)
C [auth D]	SCOP2 Superfamily	RecA-like P-loop NTPases	8092828	3002019	SCOP2 (2022-06-29)
D [auth E]	SCOP2B Superfamily	RecA-like P-loop NTPases	8092828	3002019	SCOP2B (2022-06-29)
D [auth E]	SCOP2B Superfamily	DEATH domain	8092826	3000069	SCOP2B (2022-06-29)
D [auth E]	SCOP2B Superfamily	DEATH domain	8092825	3000069	SCOP2B (2022-06-29)
D [auth E]	SCOP2B Superfamily	RecA-like P-loop NTPases	8092829	3002019	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)
A	CARD_2_1	e4a2qA4	A: alpha arrays	X: DEATH domain	H: DEATH domain (From Topology)	T: DEATH domain	F: CARD_2_1	ECOD (1.6)
A	CARD_2	e4a2qA5	A: alpha arrays	X: DEATH domain	H: DEATH domain (From Topology)	T: DEATH domain	F: CARD_2	ECOD (1.6)
A	MDA5_ID	e4a2qA3	A: alpha bundles	X: Helical bundle insertion in helicase domains	H: Helical bundle in Hef helicase (From Topology)	T: Helical bundle in Hef helicase	F: MDA5_ID	ECOD (1.6)
A	DEAD_1	e4a2qA1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: DEAD_1	ECOD (1.6)
A	Helicase_C_1	e4a2qA2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Helicase_C_1	ECOD (1.6)
B	CARD_2_1	e4a2qB4	A: alpha arrays	X: DEATH domain	H: DEATH domain (From Topology)	T: DEATH domain	F: CARD_2_1	ECOD (1.6)
B	CARD_2	e4a2qB5	A: alpha arrays	X: DEATH domain	H: DEATH domain (From Topology)	T: DEATH domain	F: CARD_2	ECOD (1.6)
B	MDA5_ID	e4a2qB3	A: alpha bundles	X: Helical bundle insertion in helicase domains	H: Helical bundle in Hef helicase (From Topology)	T: Helical bundle in Hef helicase	F: MDA5_ID	ECOD (1.6)
B	DEAD_1	e4a2qB1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: DEAD_1	ECOD (1.6)
B	Helicase_C_1	e4a2qB2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Helicase_C_1	ECOD (1.6)
C [auth D]	CARD_2_1	e4a2qD4	A: alpha arrays	X: DEATH domain	H: DEATH domain (From Topology)	T: DEATH domain	F: CARD_2_1	ECOD (1.6)
C [auth D]	CARD_2	e4a2qD5	A: alpha arrays	X: DEATH domain	H: DEATH domain (From Topology)	T: DEATH domain	F: CARD_2	ECOD (1.6)
C [auth D]	MDA5_ID	e4a2qD3	A: alpha bundles	X: Helical bundle insertion in helicase domains	H: Helical bundle in Hef helicase (From Topology)	T: Helical bundle in Hef helicase	F: MDA5_ID	ECOD (1.6)
C [auth D]	DEAD_1	e4a2qD1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: DEAD_1	ECOD (1.6)
C [auth D]	Helicase_C_1	e4a2qD2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Helicase_C_1	ECOD (1.6)
D [auth E]	CARD_2_1	e4a2qE4	A: alpha arrays	X: DEATH domain	H: DEATH domain (From Topology)	T: DEATH domain	F: CARD_2_1	ECOD (1.6)
D [auth E]	CARD_2	e4a2qE5	A: alpha arrays	X: DEATH domain	H: DEATH domain (From Topology)	T: DEATH domain	F: CARD_2	ECOD (1.6)
D [auth E]	MDA5_ID	e4a2qE3	A: alpha bundles	X: Helical bundle insertion in helicase domains	H: Helical bundle in Hef helicase (From Topology)	T: Helical bundle in Hef helicase	F: MDA5_ID	ECOD (1.6)
D [auth E]	DEAD_1	e4a2qE1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: DEAD_1	ECOD (1.6)
D [auth E]	Helicase_C_1	e4a2qE2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Helicase_C_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.533.10	Mainly Alpha	Orthogonal Bundle	Death Domain, Fas	Death Domain, Fas	CATH (4.3.0)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
A	1.20.1320.30	Mainly Alpha	Up-down Bundle	phosphoenolpyruvate carboxylase, domain 3		CATH (4.3.0)
B	1.10.533.10	Mainly Alpha	Orthogonal Bundle	Death Domain, Fas	Death Domain, Fas	CATH (4.3.0)
B	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
B	1.20.1320.30	Mainly Alpha	Up-down Bundle	phosphoenolpyruvate carboxylase, domain 3		CATH (4.3.0)
C [auth D]	1.10.533.10	Mainly Alpha	Orthogonal Bundle	Death Domain, Fas	Death Domain, Fas	CATH (4.3.0)
C [auth D]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
C [auth D]	1.20.1320.30	Mainly Alpha	Up-down Bundle	phosphoenolpyruvate carboxylase, domain 3		CATH (4.3.0)
D [auth E]	1.10.533.10	Mainly Alpha	Orthogonal Bundle	Death Domain, Fas	Death Domain, Fas	CATH (4.3.0)
D [auth E]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
D [auth E]	1.20.1320.30	Mainly Alpha	Up-down Bundle	phosphoenolpyruvate carboxylase, domain 3		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C [auth D], D [auth E]	PF16739	Caspase recruitment domain (CARD_2)	Caspase recruitment domain	In the probable ATP-dependent RNA helicase DDX58 this CARD domain is found near the N-terminus and interacts with the C-terminal domain [1].	Domain
A, B, C [auth D], D [auth E]	PF00270	DEAD/DEAH box helicase (DEAD)	DEAD/DEAH box helicase	Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome ...	Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.	Domain
A, B, C [auth D], D [auth E]	PF00271	Helicase conserved C-terminal domain (Helicase_C)	Helicase conserved C-terminal domain	The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.	Domain
A, B, C [auth D], D [auth E]	PF18119	RIG-I receptor C-terminal domain (RIG-I_C)	RIG-I receptor C-terminal domain	This is the C-terminal domain of Innate Immune Pattern-Recognition Receptor RIG-I present in homo sapiens. RIG-I is a key cytosolic pattern-recognition receptors of the vertebrate innate immune system that form the first line of defense against RNA v ...	This is the C-terminal domain of Innate Immune Pattern-Recognition Receptor RIG-I present in homo sapiens. RIG-I is a key cytosolic pattern-recognition receptors of the vertebrate innate immune system that form the first line of defense against RNA viral infection. RNA binding to RIG-I is mediated both by the C-terminal domain and by the helicase domain. The C-terminal domain specifically binds the 5'triphosphate end with a 10-fold higher affinity compared to 5'OH-dsRNA [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C [auth D], D [auth E]	RETINOIC ACID INDUCIBLE PROTEIN I	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding RNA binding double-stranded RNA binding nucleic acid binding hydrolase activity catalytic activity single-stranded RNA binding catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid helicase activity RNA helicase activity ATP-dependent activity, acting on RNA ATP-dependent activity cation binding transition metal ion binding zinc ion binding metal ion binding	biological process involved in interspecies interaction between organisms response to stimulus immune response response to other organism defense response defense response to symbiont response to external stimulus response to biotic stimulus defense response to virus immune system process defense response to other organism response to stress innate immune response antiviral innate immune response biological process involved in interspecies interaction between organisms response to stimulus immune response response to other organism defense response defense response to symbiont response to external stimulus response to biotic stimulus defense response to virus immune system process defense response to other organism response to stress innate immune response antiviral innate immune response response to external biotic stimulus response to virus	intracellular anatomical structure cytoplasm cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C [auth D], D [auth E]	IPR038557	RIG-I-like receptor, C-terminal domain superfamily	Homologous Superfamily
A, B, C [auth D], D [auth E]	IPR021673	RIG-I-like receptor, C-terminal regulatory domain	Domain
A, B, C [auth D], D [auth E]	IPR031964	Caspase recruitment domain	Domain
A, B, C [auth D], D [auth E]	IPR011029	Death-like domain superfamily	Homologous Superfamily
A, B, C [auth D], D [auth E]	IPR001650	Helicase, C-terminal domain-like	Domain
A, B, C [auth D], D [auth E]	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
A, B, C [auth D], D [auth E]	IPR042145	RIG-I, CARD domain repeat 2	Domain
A, B, C [auth D], D [auth E]	IPR051363	RIG-I-like Receptor (RLR) Helicase	Family
A, B, C [auth D], D [auth E]	IPR041204	RIG-I-like receptor, C-terminal	Domain
A, B, C [auth D], D [auth E]	IPR011545	DEAD/DEAH box helicase domain	Domain
A, B, C [auth D], D [auth E]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily