5GVU | pdb_00005gvu

crystal structure of BVDV NS3 helicase domain

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
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	EUF08001	e5gvuA3	A: alpha arrays	X: C-terminal helical domain of RNA helicase (From Topology)	H: C-terminal helical domain of RNA helicase (From Topology)	T: C-terminal helical domain of RNA helicase	F: EUF08001	ECOD (1.6)
A	Helicase_C_7	e5gvuA1	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_7	ECOD (1.6)
A	DEAD_3	e5gvuA2	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_3	ECOD (1.6)
B	EUF08001	e5gvuB2	A: alpha arrays	X: C-terminal helical domain of RNA helicase (From Topology)	H: C-terminal helical domain of RNA helicase (From Topology)	T: C-terminal helical domain of RNA helicase	F: EUF08001	ECOD (1.6)
B	Helicase_C_7	e5gvuB1	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_7	ECOD (1.6)
B	DEAD_3	e5gvuB3	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_3	ECOD (1.6)
C	EUF08001	e5gvuC3	A: alpha arrays	X: C-terminal helical domain of RNA helicase (From Topology)	H: C-terminal helical domain of RNA helicase (From Topology)	T: C-terminal helical domain of RNA helicase	F: EUF08001	ECOD (1.6)
C	Helicase_C_7	e5gvuC1	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_7	ECOD (1.6)
C	DEAD_3	e5gvuC2	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_3	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF20907	Flavivirus NS3 helicase, C-terminal helical domain (Flav_NS3-hel_C)	Flavivirus NS3 helicase, C-terminal helical domain	This domain is found at the C-terminal end of NS3 helicase (Non- structural protein 3-helicase, NS3-Hel) found in Flavivirus such as Zika virus (ZIKV) and Dengue virus type 1 (DENV-1). This protein binds RNA and unwinds dsRNA in the 3' to 5' directio ...	This domain is found at the C-terminal end of NS3 helicase (Non- structural protein 3-helicase, NS3-Hel) found in Flavivirus such as Zika virus (ZIKV) and Dengue virus type 1 (DENV-1). This protein binds RNA and unwinds dsRNA in the 3' to 5' direction. It consists of three domains. This entry represent the final domain, which is mostly alpha-helical [1,2]. A highly conserved R residue located in this domain was proven essential for the enzymatic activities of the protein [3].	Domain
A, B, C	PF07652	Flavivirus DEAD domain (Flavi_DEAD)	Flavivirus DEAD domain		Domain
A, B, C	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, B, C	NS3 helicase	serine-type exopeptidase activity peptidase activity serine hydrolase activity catalytic activity, acting on a protein serine-type peptidase activity hydrolase activity exopeptidase activity catalytic activity DNA binding nucleic acid conformation isomerase activity isomerase activity binding single-stranded DNA binding catalytic activity, acting on a nucleic acid serine-type exopeptidase activity peptidase activity serine hydrolase activity catalytic activity, acting on a protein serine-type peptidase activity hydrolase activity exopeptidase activity catalytic activity DNA binding nucleic acid conformation isomerase activity isomerase activity binding single-stranded DNA binding catalytic activity, acting on a nucleic acid nucleic acid binding DNA/DNA annealing activity catalytic activity, acting on DNA annealing activity macromolecular conformation isomerase activity RNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA RNA polymerase activity transferase activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups serine-type endopeptidase activity endopeptidase activity RNA strand annealing activity RNA binding single-stranded RNA 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 phosphorus-oxygen lyase activity endonuclease activity nuclease activity RNA endonuclease activity RNA nuclease activity lyase activity ribonuclease T2 activity helicase activity RNA helicase activity ATP-dependent activity, acting on RNA ATP-dependent activity identical protein binding protein binding cysteine-type peptidase activity cysteine-type endopeptidase activity guanyl nucleotide binding GTP binding guanyl ribonucleotide binding signaling receptor binding G protein-coupled receptor binding dopamine receptor binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity, acting on acid anhydrides passive transmembrane transporter activity channel activity transporter activity transmembrane transporter activity	RNA metabolic process viral life cycle primary metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process viral genome replication biosynthetic process viral RNA genome replication viral process metabolic process RNA metabolic process viral life cycle primary metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process viral genome replication biosynthetic process viral RNA genome replication viral process metabolic process cellular process macromolecule metabolic process symbiont-mediated perturbation of host defense response symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms symbiont-mediated suppression of host pathogen-associated molecular pattern receptor signaling pathway symbiont-mediated perturbation of host immune response biological process involved in interaction with host symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of IRF3 activity biological process involved in symbiotic interaction symbiont-mediated suppression of host signal transduction pathway symbiont-mediated suppression of host immune response symbiont-mediated suppression of host innate immune response symbiont-mediated perturbation of host process symbiont-mediated perturbation of host innate immune response symbiont-mediated perturbation of host signal transduction pathway modulation of process of another organism symbiont-mediated suppression of cytoplasmic pattern recognition receptor signaling pathway regulation of cellular process catabolic process negative regulation of biological process macromolecule catabolic process regulation of primary metabolic process post-transcriptional regulation of gene expression regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological quality RNA catabolic process negative regulation of macromolecule metabolic process negative regulation of catabolic process regulation of biosynthetic process regulation of biological process negative regulation of metabolic process biological regulation negative regulation of RNA catabolic process regulation of macromolecule metabolic process regulation of catabolic process gene expression nucleobase-containing compound catabolic process RNA stabilization regulation of gene expression regulation of RNA stability nucleic acid catabolic process regulation of macromolecule biosynthetic process regulation of metabolic process negative regulation of RNA metabolic process viral gene expression viral protein processing symbiont-mediated perturbation of host autophagy symbiont-mediated activation of host autophagy virion assembly viral genome packaging fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell import into cell receptor-mediated endocytosis of virus by host cell transport establishment of localization vesicle-mediated transport localization symbiont entry into host cell clathrin-dependent endocytosis symbiont entry into host clathrin-dependent endocytosis of virus by host cell receptor-mediated endocytosis endocytosis endocytosis involved in viral entry into host cell transmembrane transport monoatomic ion transmembrane transport monoatomic ion transport virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host proteolysis protein metabolic process	cellular anatomical structure membrane host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum host cell membrane other organism part host cell cytoplasm part host intracellular organelle host cell cytoplasm host cell part host cell endomembrane system host intracellular region cellular anatomical structure membrane host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum host cell membrane other organism part host cell cytoplasm part host intracellular organelle host cell cytoplasm host cell part host cell endomembrane system host intracellular region host cell endoplasmic reticulum membrane virion component virion membrane protein-containing complex protein-DNA complex ribonucleoprotein complex host cell cytoplasmic vesicle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR008751	Peptidase C53, pestivirus Npro	Domain
A, B, C	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
A, B, C	IPR011492	Non-structural protein NS3-like, DEAD-box helicase, flavivirus	Domain
A, B, C	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B, C	IPR032843	Cleavage inducing molecular chaperone, Jiv	Domain
A, B, C	IPR001650	Helicase, C-terminal domain-like	Domain
A, B, C	IPR021824	Capsid protein C, pestivirus	Domain
A, B, C	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
A, B, C	IPR022120	Pestivirus nonstructural protein 2	Family
A, B, C	IPR049486	Flavivridae NS3 helicase, C-terminal helical domain	Domain
A, B, C	IPR033130	Ribonuclease T2, His active site 2	Active Site
A, B, C	IPR042542	Peptidase C53, pestivirus Npro, interaction domain	Homologous Superfamily
A, B, C	IPR030399	Pestivirus NS2, peptidase C74	Domain
A, B, C	IPR000280	Pestivirus NS3, peptidase S31	Domain
A, B, C	IPR042309	Pestivirus envelope glycoprotein E2, domain A	Homologous Superfamily
A, B, C	IPR042310	Pestivirus envelope glycoprotein E2, domain B	Homologous Superfamily
A, B, C	IPR002166	RNA dependent RNA polymerase, hepatitis C virus	Family
A, B, C	IPR042311	Pestivirus envelope glycoprotein E2, domain D	Homologous Superfamily
A, B, C	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A, B, C	IPR032521	Pestivirus envelope glycoprotein E2	Domain
A, B, C	IPR007094	RNA-directed RNA polymerase, catalytic domain	Domain
A, B, C	IPR036430	Ribonuclease T2-like superfamily	Homologous Superfamily
A, B, C	IPR052317	Viral replication and host interaction regulator	Family