7PLI

DEAD-box helicase DbpA bound to single stranded RNA and ADP/BeF3

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF03880	e7pliA3	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: PF03880	ECOD (1.6)
A	PF00270	e7pliA1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00270	ECOD (1.6)
A	PF00271	e7pliA2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00271	ECOD (1.6)
E	PF03880	e7pliE3	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: PF03880	ECOD (1.6)
E	PF00270	e7pliE1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00270	ECOD (1.6)
E	PF00271	e7pliE2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00271	ECOD (1.6)
G [auth J]	PF03880	e7pliJ3	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: PF03880	ECOD (1.6)
G [auth J]	PF00270	e7pliJ1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00270	ECOD (1.6)
G [auth J]	PF00271	e7pliJ2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00271	ECOD (1.6)
I	PF03880	e7pliI3	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: PF03880	ECOD (1.6)
I	PF00270	e7pliI1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00270	ECOD (1.6)
I	PF00271	e7pliI2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00271	ECOD (1.6)
K [auth F]	PF03880	e7pliF3	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: PF03880	ECOD (1.6)
K [auth F]	PF00270	e7pliF1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00270	ECOD (1.6)
K [auth F]	PF00271	e7pliF2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00271	ECOD (1.6)
C [auth B]	PF03880	e7pliB3	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: PF03880	ECOD (1.6)
C [auth B]	PF00270	e7pliB2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00270	ECOD (1.6)
C [auth B]	PF00271	e7pliB1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00271	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C [auth B], E, G [auth J], I, A, C [auth B], E, G [auth J], I, K [auth F]	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, C [auth B], E, G [auth J], I, A, C [auth B], E, G [auth J], I, K [auth F]	PF03880	DbpA RNA binding domain (DbpA)	DbpA RNA binding domain	This RNA binding domain is found at the C-terminus of a number of DEAD helicase proteins [1]. It is sufficient to confer specificity for hairpin 92 of 23S rRNA, which is part of the ribosomal A-site. However, several members of this family lack spe ...	This RNA binding domain is found at the C-terminus of a number of DEAD helicase proteins [1]. It is sufficient to confer specificity for hairpin 92 of 23S rRNA, which is part of the ribosomal A-site. However, several members of this family lack specificity for 23S rRNA. These can proteins can generally be distinguished by a basic region that extends beyond this domain [Karl Kossen, unpublished data].	Domain
A, C [auth B], E, G [auth J], I, A, C [auth B], E, G [auth J], I, K [auth F]	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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C [auth B], E, G [auth J], I, A, C [auth B], E, G [auth J], I, K [auth F]	ATP-dependent RNA helicase DbpA	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 ADP binding ATP-dependent activity, acting on DNA DNA/RNA helicase activity catalytic activity, acting on DNA catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid helicase activity catalytic activity ATP-dependent activity, acting on RNA ATP-dependent activity RNA binding rRNA binding nucleic acid binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides RNA helicase activity 3'-5' RNA helicase activity	cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular process cellular component organization or biogenesis	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol
B [auth D], D [auth C], F [auth G], H [auth L], J [auth K], B [auth D], D [auth C], F [auth G], H [auth L], J [auth K], L [auth H]	RNA (5'-D((POP))-R(PGPGPAPCPAPUPAPUPGPGPCPUPGPUPUPCPGPCPCPAPUP*U)-3')	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C [auth B], E, G [auth J], I, A, C [auth B], E, G [auth J], I, K [auth F]	IPR001650	Helicase, C-terminal domain-like	Domain
A, C [auth B], E, G [auth J], I, A, C [auth B], E, G [auth J], I, K [auth F]	IPR000629	ATP-dependent RNA helicase DEAD-box, conserved site	Conserved Site
A, C [auth B], E, G [auth J], I, A, C [auth B], E, G [auth J], I, K [auth F]	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
A, C [auth B], E, G [auth J], I, A, C [auth B], E, G [auth J], I, K [auth F]	IPR005580	DEAD box helicase DbpA/CsdA, RNA-binding domain	Domain
A, C [auth B], E, G [auth J], I, A, C [auth B], E, G [auth J], I, K [auth F]	IPR012677	Nucleotide-binding alpha-beta plait domain superfamily	Homologous Superfamily
A, C [auth B], E, G [auth J], I, A, C [auth B], E, G [auth J], I, K [auth F]	IPR028619	ATP-dependent RNA helicase DbpA	Family
A, C [auth B], E, G [auth J], I, A, C [auth B], E, G [auth J], I, K [auth F]	IPR011545	DEAD/DEAH box helicase domain	Domain
A, C [auth B], E, G [auth J], I, A, C [auth B], E, G [auth J], I, K [auth F]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.