4N0O | pdb_00004n0o

Complex structure of Arterivirus nonstructural protein 10 (helicase) with DNA

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	EUF07525	e4n0oA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: EUF07525	ECOD (1.6)
A	DEAD_4	e4n0oA2	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_4	ECOD (1.6)
A	UvrD_C_2_1	e4n0oA3	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: UvrD_C_2_1	ECOD (1.6)
A	CarbpepA_inh_like	e4n0oA4	A: few secondary structure elements	X: RING/U-box-like	H: RING/U-box-like	T: RING/U-box	F: CarbpepA_inh_like	ECOD (1.6)
B [auth C]	EUF07525	e4n0oC1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: EUF07525	ECOD (1.6)
B [auth C]	DEAD_4	e4n0oC2	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_4	ECOD (1.6)
B [auth C]	UvrD_C_2_1	e4n0oC3	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: UvrD_C_2_1	ECOD (1.6)
B [auth C]	CarbpepA_inh_like	e4n0oC4	A: few secondary structure elements	X: RING/U-box-like	H: RING/U-box-like	T: RING/U-box	F: CarbpepA_inh_like	ECOD (1.6)
D [auth G]	EUF07525	e4n0oG1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: EUF07525	ECOD (1.6)
D [auth G]	DEAD_4	e4n0oG2	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_4	ECOD (1.6)
D [auth G]	UvrD_C_2_1	e4n0oG3	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: UvrD_C_2_1	ECOD (1.6)
D [auth G]	CarbpepA_inh_like	e4n0oG4	A: few secondary structure elements	X: RING/U-box-like	H: RING/U-box-like	T: RING/U-box	F: CarbpepA_inh_like	ECOD (1.6)
C [auth E]	EUF07525	e4n0oE1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: EUF07525	ECOD (1.6)
C [auth E]	DEAD_4	e4n0oE2	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_4	ECOD (1.6)
C [auth E]	UvrD_C_2_1	e4n0oE3	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: UvrD_C_2_1	ECOD (1.6)
C [auth E]	CarbpepA_inh_like	e4n0oE4	A: few secondary structure elements	X: RING/U-box-like	H: RING/U-box-like	T: RING/U-box	F: CarbpepA_inh_like	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B [auth C], C [auth E], D [auth G]	PF17873	Replicase polyprotein 1ab regulatory domain (Rep_1B)	Replicase polyprotein 1ab regulatory domain	This entry relates to a regulatory domain found in replicase polyprotein 1ab found in Arterivirus. Structural studies of arterivirus helicase (nsp10), indicate that this domain undergoes conformational changes on substrate binding. Besides the large ...	This entry relates to a regulatory domain found in replicase polyprotein 1ab found in Arterivirus. Structural studies of arterivirus helicase (nsp10), indicate that this domain undergoes conformational changes on substrate binding. Besides the large conformational change, it is suggested that the regions at the surface of domain 1B not directly involved in DNA binding may become flexible. For example, domain 1B residues Arg95, Gly125 and Ala131 become disordered after DNA binding. Together with domains 1A and 2A it forms a nucleic acid-binding channel where the single-stranded part of the DNA substrate is bound to [1].	Domain
A, B [auth C], C [auth E], D [auth G]	PF01443	Viral superfamily 1 RNA helicase core domain (Viral_helicase1)	Viral superfamily 1 RNA helicase core domain	This entry represents the (+) RNA virus helicase core domain. The (+) RNA virus helicase core contains two RecA-like alpha/beta domains. The N-terminal ATP-binding domain contains a parallel six-stranded alpha-sheet surrounded by four helices on one ...	This entry represents the (+) RNA virus helicase core domain. The (+) RNA virus helicase core contains two RecA-like alpha/beta domains. The N-terminal ATP-binding domain contains a parallel six-stranded alpha-sheet surrounded by four helices on one side and two helices on the other. The C-terminal domain contains a parallel four-stranded beta-sheet sandwiched between two helices on each of its sides. The (+) RNA virus helicase core is likely to bind NTP in cleft between the N terminus of the ATP-binding domain and the beginning of the C-terminal domain [2,5]. Helicase activity for this domain has been demonstrated [1]. This helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [3].	Domain
A, B [auth C], C [auth E], D [auth G]	PF17977	RING/Ubox like zinc-binding domain (zf-RING_13)	RING/Ubox like zinc-binding domain	This is a zinc binding domain found in nidovirus helicase. It includes includes 12 or 13 conserved Cys/His residues. Amino acid substitutions in ZBD or the adjacent spacer that connects it to the downstream domain can profoundly affect EAV (equine ar ...	This is a zinc binding domain found in nidovirus helicase. It includes includes 12 or 13 conserved Cys/His residues. Amino acid substitutions in ZBD or the adjacent spacer that connects it to the downstream domain can profoundly affect EAV (equine arteritis virus) helicase activity and RNA synthesis, with most replacements of conserved Cys or His residues yielding replication-negative virus phenotypes [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E [auth B], F [auth D], G [auth F], H	DNA	-	-	-
A, B [auth C], C [auth E], D [auth G]	Replicase polyprotein 1ab	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 RNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity 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 RNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups serine-type endopeptidase activity endopeptidase activity 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 nucleic acid conformation isomerase activity isomerase activity helicase activity RNA helicase activity ATP-dependent activity, acting on RNA macromolecular conformation isomerase activity ATP-dependent activity endonuclease activity nuclease activity cysteine-type peptidase activity cysteine-type endopeptidase activity lyase activity RNA binding nucleic acid binding ubiquitin-like protein peptidase activity cysteine-type deubiquitinase activity deubiquitinase activity RNA nuclease activity 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 cation binding transition metal ion binding zinc ion binding metal ion binding	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 suppression of host ISG15-protein conjugation biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host immune response biological process involved in interaction with host biological process involved in symbiotic interaction 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 modulation of process of another organism viral gene expression viral protein processing gene expression DNA-templated transcription symbiont-mediated perturbation of host cellular process symbiont-mediated perturbation of host ubiquitin-like protein modification symbiont-mediated suppression of host signal transduction pathway symbiont-mediated suppression of host interferon-mediated signaling pathway symbiont-mediated suppression of host type I interferon-mediated signaling pathway symbiont-mediated perturbation of host signal transduction pathway viral translational frameshifting viral translation proteolysis protein metabolic process	cellular anatomical structure membrane host cellular component host intracellular part host cell perinuclear region of cytoplasm host cell cytoplasm host cell part host intracellular region other organism part host cell cytoplasm part host cell membrane host intracellular membrane-bounded organelle host cell nucleus host intracellular organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B [auth C], C [auth E], D [auth G]	IPR008741	Arterivirus papain-like cysteine protease alpha (PCPalpha) domain	Domain
A, B [auth C], C [auth E], D [auth G]	IPR029323	Equine arteritis virus, non-structural protein 1	Domain
A, B [auth C], C [auth E], D [auth G]	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
A, B [auth C], C [auth E], D [auth G]	IPR025773	Arterivirus papain-like cysteine protease beta (PCPbeta) domain	Domain
A, B [auth C], C [auth E], D [auth G]	IPR044863	Nidovirus RdRp-associated nucleotidyl transferase (NiRAN) domain	Domain
A, B [auth C], C [auth E], D [auth G]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B [auth C], C [auth E], D [auth G]	IPR037227	Endoribonuclease EndoU-like	Homologous Superfamily
A, B [auth C], C [auth E], D [auth G]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
A, B [auth C], C [auth E], D [auth G]	IPR022230	Protein of unknown function DUF3756	Family
A, B [auth C], C [auth E], D [auth G]	IPR008760	Equine arteritis virus peptidase S32	Family
A, B [auth C], C [auth E], D [auth G]	IPR032786	Nsp2, transmembrane domain	Domain
A, B [auth C], C [auth E], D [auth G]	IPR038451	Arterivirus nsp7 alpha superfamily	Homologous Superfamily
A, B [auth C], C [auth E], D [auth G]	IPR027351	(+) RNA virus helicase core domain	Domain
A, B [auth C], C [auth E], D [auth G]	IPR041053	Replicase polyprotein 1ab	Domain
A, B [auth C], C [auth E], D [auth G]	IPR023338	Arterivirus NSP4 peptidase domain	Domain
A, B [auth C], C [auth E], D [auth G]	IPR008743	Arterivirus Nsp2, peptidase C33	Domain
A, B [auth C], C [auth E], D [auth G]	IPR001205	RNA-directed RNA polymerase, C-terminal domain	Domain
A, B [auth C], C [auth E], D [auth G]	IPR027355	Nonstructural protein 10, zinc-binding domain, arterivirus	Domain
A, B [auth C], C [auth E], D [auth G]	IPR046440	Arterivirus Nsp11 N-terminal/Coronavirus NSP15 middle domain	Domain
A, B [auth C], C [auth E], D [auth G]	IPR044320	NSP11, N-terminal, arterivirus	Domain
A, B [auth C], C [auth E], D [auth G]	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A, B [auth C], C [auth E], D [auth G]	IPR023183	Serine protease, chymotrypsin-like serine protease, C-terminal	Homologous Superfamily
A, B [auth C], C [auth E], D [auth G]	IPR043609	NendoU domain, nidovirus	Domain
A, B [auth C], C [auth E], D [auth G]	IPR044314	NSP11, NendoU domain, arterivirus	Domain
A, B [auth C], C [auth E], D [auth G]	IPR043504	Peptidase S1, PA clan, chymotrypsin-like fold	Homologous Superfamily
A, B [auth C], C [auth E], D [auth G]	IPR007094	RNA-directed RNA polymerase, catalytic domain	Domain
A, B [auth C], C [auth E], D [auth G]	IPR041361	Nidovirus helicase, RING/Ubox like zinc-binding domain	Domain
A, B [auth C], C [auth E], D [auth G]	IPR031932	Arterivirus nonstructural protein 7 alpha	Family