1PVC | pdb_00001pvc

REFINEMENT OF THE SABIN STRAIN OF TYPE 3 POLIOVIRUS AT 2.4 ANGSTROMS AND THE CRYSTAL STRUCTURES OF ITS VARIANTS AT 2.9 ANGSTROMS RESOLUTION

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
E [auth 4]	d1pvc.1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Positive stranded ssRNA viruses	Picornaviridae-like VP (VP1, VP2, VP3 and VP4)	Poliovirus coat proteins	(Poliovirus type 3 (strains P3/LEON/37 AND P3/LEON 12A[1]B) ) [TaxId: 12088 ],	SCOPe (2.08)
D [auth 3]	d1pvc3_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Positive stranded ssRNA viruses	Picornaviridae-like VP (VP1, VP2, VP3 and VP4)	Poliovirus coat proteins	(Poliovirus type 3 (strains P3/LEON/37 AND P3/LEON 12A[1]B) ) [TaxId: 12088 ],	SCOPe (2.08)
C [auth 2]	d1pvc.1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Positive stranded ssRNA viruses	Picornaviridae-like VP (VP1, VP2, VP3 and VP4)	Poliovirus coat proteins	(Poliovirus type 3 (strains P3/LEON/37 AND P3/LEON 12A[1]B) ) [TaxId: 12088 ],	SCOPe (2.08)
B [auth 1]	d1pvc1_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Positive stranded ssRNA viruses	Picornaviridae-like VP (VP1, VP2, VP3 and VP4)	Poliovirus coat proteins	(Poliovirus type 3 (strains P3/LEON/37 AND P3/LEON 12A[1]B) ) [TaxId: 12088 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D [auth 3]	SCOP2 Family	Picornaviridae-like VP (VP1, VP2, VP3 and VP4)	8028504	4003466	SCOP2 (2022-06-29)
D [auth 3]	SCOP2 Superfamily	Positive stranded ssRNA viruses-like	8040883	3000918	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
E [auth 4]		e1pvc41	A: alpha arrays	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F:	ECOD (v295.2)
D [auth 3]	Copper-bind	e1pvc31	A: alpha arrays	X: Phage tail fiber protein trimerization domain	H: Phage tail fiber protein trimerization domain	T: Phage tail fiber protein trimerization domain	F: Copper-bind	ECOD (v295.2)
C [auth 2]	Beta-Casp	e1pvc21	A: alpha arrays	X: Four-helical up-and-down bundle	H: Glycoside hydrolase family 127 middle domain-related	T: Glycoside hydrolase family 127 middle domain-related	F: Beta-Casp	ECOD (v295.2)
B [auth 1]	Rhv	e1pvc11	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Rhv	ECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
E [auth 4]	4.10.80.10	Few Secondary Structures	Irregular	Rhinovirus 14, subunit 4	Picornavirus coat protein VP4	CATH (4.3.0)
D [auth 3]	2.60.120.20	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)
C [auth 2]	2.60.120.20	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)
B [auth 1]	2.60.120.20	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E [auth 4]	POLIOVIRUS TYPE 3, SABIN STRAIN	cysteine-type peptidase activity peptidase activity catalytic activity, acting on a protein cysteine-type endopeptidase activity hydrolase activity catalytic activity endopeptidase 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 cysteine-type peptidase activity peptidase activity catalytic activity, acting on a protein cysteine-type endopeptidase activity hydrolase activity catalytic activity endopeptidase 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 RNA binding binding nucleic acid 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 pyrophosphatase 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 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 structural molecule activity cation binding transition metal ion binding zinc ion binding metal ion binding	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process RNA metabolic process viral life cycle nucleobase-containing compound biosynthetic process macromolecule biosynthetic process RNA biosynthetic process nucleic acid biosynthetic process nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process RNA metabolic process viral life cycle nucleobase-containing compound biosynthetic process macromolecule biosynthetic process RNA biosynthetic process nucleic acid biosynthetic process viral genome replication biosynthetic process viral RNA genome replication viral process import into cell receptor-mediated endocytosis of virus by host cell biological process involved in interspecies interaction between organisms transport establishment of localization caveolin-mediated endocytosis biological process involved in interaction with host vesicle-mediated transport biological process involved in symbiotic interaction localization symbiont entry into host cell caveolin-mediated endocytosis of virus by host cell symbiont entry into host endocytosis involved in viral entry into host cell receptor-mediated endocytosis endocytosis transmembrane transport monoatomic ion transmembrane transport monoatomic ion transport gene expression DNA-templated transcription symbiont-mediated perturbation of host defense response symbiont-mediated perturbation of host cellular process symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of MAVS activity symbiont-mediated suppression of host pathogen-associated molecular pattern receptor signaling pathway symbiont-mediated perturbation of host immune response symbiont-mediated suppression of host signal transduction pathway symbiont-mediated suppression of host immune response symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway 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 disruption of host anatomical structure symbiont-mediated disruption of host cellular anatomical structure symbiont-mediated perturbation of host membrane symbiont genome entry into host cell via pore formation in plasma membrane disruption of anatomical structure in another organism virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host symbiont-mediated perturbation of host autophagy symbiont-mediated activation of host autophagy symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of RIG-I activity proteolysis protein metabolic process symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of MDA-5 activity symbiont-mediated perturbation of host intracellular transport symbiont-mediated suppression of host mRNA export from nucleus symbiont-mediated suppression of host gene expression symbiont-mediated perturbation of host gene expression	host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part host intracellular membrane-bounded organelle host cell membrane host cell cytoplasmic vesicle membrane host cell cytoplasm part host intracellular organelle host cell cytoplasmic vesicle viral capsid host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part host intracellular membrane-bounded organelle host cell membrane host cell cytoplasmic vesicle membrane host cell cytoplasm part host intracellular organelle host cell cytoplasmic vesicle viral capsid icosahedral viral capsid virion component T=pseudo3 icosahedral viral capsid host cell nucleus
D [auth 3]	POLIOVIRUS TYPE 3, SABIN STRAIN	-	-	-
C [auth 2]	POLIOVIRUS TYPE 3, SABIN STRAIN	cysteine-type peptidase activity peptidase activity catalytic activity, acting on a protein cysteine-type endopeptidase activity hydrolase activity catalytic activity endopeptidase 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 cysteine-type peptidase activity peptidase activity catalytic activity, acting on a protein cysteine-type endopeptidase activity hydrolase activity catalytic activity endopeptidase 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 RNA binding binding nucleic acid 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 pyrophosphatase 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 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 structural molecule activity cation binding transition metal ion binding zinc ion binding metal ion binding	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process RNA metabolic process viral life cycle nucleobase-containing compound biosynthetic process macromolecule biosynthetic process RNA biosynthetic process nucleic acid biosynthetic process nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process RNA metabolic process viral life cycle nucleobase-containing compound biosynthetic process macromolecule biosynthetic process RNA biosynthetic process nucleic acid biosynthetic process viral genome replication biosynthetic process viral RNA genome replication viral process import into cell receptor-mediated endocytosis of virus by host cell biological process involved in interspecies interaction between organisms transport establishment of localization caveolin-mediated endocytosis biological process involved in interaction with host vesicle-mediated transport biological process involved in symbiotic interaction localization symbiont entry into host cell caveolin-mediated endocytosis of virus by host cell symbiont entry into host endocytosis involved in viral entry into host cell receptor-mediated endocytosis endocytosis transmembrane transport monoatomic ion transmembrane transport monoatomic ion transport gene expression DNA-templated transcription symbiont-mediated perturbation of host defense response symbiont-mediated perturbation of host cellular process symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of MAVS activity symbiont-mediated suppression of host pathogen-associated molecular pattern receptor signaling pathway symbiont-mediated perturbation of host immune response symbiont-mediated suppression of host signal transduction pathway symbiont-mediated suppression of host immune response symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway 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 disruption of host anatomical structure symbiont-mediated disruption of host cellular anatomical structure symbiont-mediated perturbation of host membrane symbiont genome entry into host cell via pore formation in plasma membrane disruption of anatomical structure in another organism virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host symbiont-mediated perturbation of host autophagy symbiont-mediated activation of host autophagy symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of RIG-I activity proteolysis protein metabolic process symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of MDA-5 activity symbiont-mediated perturbation of host intracellular transport symbiont-mediated suppression of host mRNA export from nucleus symbiont-mediated suppression of host gene expression symbiont-mediated perturbation of host gene expression	host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part host intracellular membrane-bounded organelle host cell membrane host cell cytoplasmic vesicle membrane host cell cytoplasm part host intracellular organelle host cell cytoplasmic vesicle viral capsid host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part host intracellular membrane-bounded organelle host cell membrane host cell cytoplasmic vesicle membrane host cell cytoplasm part host intracellular organelle host cell cytoplasmic vesicle viral capsid icosahedral viral capsid virion component T=pseudo3 icosahedral viral capsid host cell nucleus
B [auth 1]	POLIOVIRUS TYPE 3, SABIN STRAIN	-	-	-
A [auth 0]	POLIOVIRUS TYPE 3, SABIN STRAIN	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth 4]	IPR001205	RNA-directed RNA polymerase, C-terminal domain	Domain
E [auth 4]	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
E [auth 4]	IPR003138	Picornavirus coat protein VP4	Family
E [auth 4]	IPR000199	Peptidase C3A/C3B, picornaviral	Domain
E [auth 4]	IPR001676	Picornavirus capsid	Domain
E [auth 4]	IPR014759	Helicase, superfamily 3, single-stranded RNA virus	Domain
E [auth 4]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
E [auth 4]	IPR000081	Peptidase C3, picornavirus core protein 2A	Domain
E [auth 4]	IPR029053	Viral coat protein subunit	Homologous Superfamily
E [auth 4]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
E [auth 4]	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
E [auth 4]	IPR044067	Picornavirales 3C/3C-like protease domain	Domain
E [auth 4]	IPR033703	Picornavirus/Calicivirus coat protein	Domain
E [auth 4]	IPR002527	2B protein, picornavirus	Domain
E [auth 4]	IPR014838	Poliovirus 3A protein-like	Domain
E [auth 4]	IPR036203	Poliovirus core protein 3a, soluble domain	Homologous Superfamily
E [auth 4]	IPR007094	RNA-directed RNA polymerase, catalytic domain	Domain
E [auth 4]	IPR000605	Helicase, superfamily 3, single-stranded DNA/RNA virus	Domain
C [auth 2]	IPR001205	RNA-directed RNA polymerase, C-terminal domain	Domain
C [auth 2]	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
C [auth 2]	IPR003138	Picornavirus coat protein VP4	Family
C [auth 2]	IPR000199	Peptidase C3A/C3B, picornaviral	Domain
C [auth 2]	IPR001676	Picornavirus capsid	Domain
C [auth 2]	IPR014759	Helicase, superfamily 3, single-stranded RNA virus	Domain
C [auth 2]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
C [auth 2]	IPR000081	Peptidase C3, picornavirus core protein 2A	Domain
C [auth 2]	IPR029053	Viral coat protein subunit	Homologous Superfamily
C [auth 2]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
C [auth 2]	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
C [auth 2]	IPR044067	Picornavirales 3C/3C-like protease domain	Domain
C [auth 2]	IPR033703	Picornavirus/Calicivirus coat protein	Domain
C [auth 2]	IPR002527	2B protein, picornavirus	Domain
C [auth 2]	IPR014838	Poliovirus 3A protein-like	Domain
C [auth 2]	IPR036203	Poliovirus core protein 3a, soluble domain	Homologous Superfamily
C [auth 2]	IPR007094	RNA-directed RNA polymerase, catalytic domain	Domain
C [auth 2]	IPR000605	Helicase, superfamily 3, single-stranded DNA/RNA virus	Domain