5WX1

The closed-conformation crystal structure of the full-length pestivirus NS3 with its NS4A protease cofactor segment

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	PF05578	e5wx1A4	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel	F: PF05578	ECOD (1.6)
A	PF20907	e5wx1A1	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: PF20907	ECOD (1.6)
A	PF00271	e5wx1A2	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)
A	PF07652	e5wx1A3	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF07652	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	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- 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' dire ...	This domain is found at the C-terminal end of NS3 helicase (Non- 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	PF07652	Flavivirus DEAD domain (Flavi_DEAD)	Flavivirus DEAD domain	-	Domain
A	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	PF05578	Pestivirus NS3 polyprotein peptidase S31 (Peptidase_S31)	Pestivirus NS3 polyprotein peptidase S31	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Serine protease NS3	5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity RNA-dependent RNA polymerase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups serine-type exopeptidase activity peptidase activity serine hydrolase activity catalytic activity, acting on a protein serine-type peptidase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity RNA-dependent RNA polymerase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups serine-type exopeptidase activity peptidase activity serine hydrolase activity catalytic activity, acting on a protein serine-type peptidase activity hydrolase activity exopeptidase activity cysteine-type peptidase activity cysteine-type endopeptidase activity endopeptidase activity passive transmembrane transporter activity monoatomic ion channel activity channel activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity serine-type endopeptidase activity RNA binding binding organic cyclic compound binding nucleic acid binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding adenyl ribonucleotide binding adenyl nucleotide binding ATP binding pyrophosphatase activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity, acting on acid anhydrides endonuclease activity RNA nuclease activity phosphorus-oxygen lyase activity nuclease activity hydrolase activity, acting on ester bonds RNA endonuclease activity lyase activity ribonuclease T2 activity helicase activity RNA helicase activity ATP-dependent activity, acting on RNA ATP-dependent activity	viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein complex oligomerization protein-containing complex assembly cellular process cellular component organization or biogenesis cellular biosynthetic process cellular metabolic process RNA metabolic process viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein complex oligomerization protein-containing complex assembly cellular process cellular component organization or biogenesis cellular biosynthetic process cellular 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 organic cyclic compound metabolic process nucleic acid biosynthetic process organic substance metabolic process viral genome replication biosynthetic process viral RNA genome replication organic cyclic compound biosynthetic process organic substance biosynthetic process metabolic process macromolecule metabolic process viral gene expression viral protein processing virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated perturbation of host cellular process response to stimulus symbiont-mediated suppression of host pathogen-associated molecular pattern receptor signaling pathway response to biotic stimulus symbiont-mediated suppression of host immune response symbiont-mediated suppression of host innate immune response response to host immune response symbiont-mediated suppression of host defenses symbiont-mediated perturbation of host innate immune response response to host response to external biotic stimulus symbiont-mediated perturbation of host signal transduction pathway modulation of process of another organism symbiont-mediated perturbation of host defense response response to host defenses response to other organism symbiont-mediated perturbation of host immune response response to defenses of other organism symbiont-mediated perturbation of host defenses response to external stimulus symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of IRF3 activity symbiont-mediated suppression of host signal transduction pathway modulation by symbiont of host process symbiont-mediated suppression of cytoplasmic pattern recognition receptor signaling pathway catabolic process regulation of cellular process autophagy positive regulation of biological process modulation by virus of host process positive regulation of cellular metabolic process regulation of autophagy cellular catabolic process positive regulation of metabolic process induction by virus of host autophagy process utilizing autophagic mechanism positive regulation of cellular process modulation by virus of host cellular process positive regulation of autophagy regulation of biological process modulation by virus of host autophagy biological regulation regulation of cellular metabolic process regulation of catabolic process symbiont-mediated perturbation of host autophagy positive regulation of catabolic process regulation of cellular catabolic process positive regulation of cellular catabolic process regulation of metabolic process symbiont entry into host cell symbiont entry into host organonitrogen compound metabolic process proteolysis protein metabolic process	membrane cellular anatomical entity intracellular anatomical structure cytoplasm host cellular component host intracellular part host cell cytoplasm host cell part host intracellular region virion component virion membrane host cell membrane

InterPro: Protein Family Classification InterPro Database Homepage

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

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.

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5WX1

The closed-conformation crystal structure of the full-length pestivirus NS3 with its NS4A protease cofactor segment

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage