2IJD

Crystal Structure of the Poliovirus Precursor Protein 3CD

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
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)
A [auth 1]	d2ijd11	All beta proteins	Trypsin-like serine proteases	Trypsin-like serine proteases	Viral cysteine protease of trypsin fold	3C cysteine protease (picornain 3C)	(Human poliovirus 1 Mahoney ) [TaxId: 12081 ],	SCOPe (2.08)
A [auth 1]	d2ijd12	Multi-domain proteins (alpha and beta)	DNA/RNA polymerases	DNA/RNA polymerases	RNA-dependent RNA-polymerase	Viral RNA polymerase	(Human poliovirus 1 Mahoney ) [TaxId: 12081 ],	SCOPe (2.08)
B [auth 2]	d2ijd21	All beta proteins	Trypsin-like serine proteases	Trypsin-like serine proteases	Viral cysteine protease of trypsin fold	3C cysteine protease (picornain 3C)	(Human poliovirus 1 Mahoney ) [TaxId: 12081 ],	SCOPe (2.08)
B [auth 2]	d2ijd22	Multi-domain proteins (alpha and beta)	DNA/RNA polymerases	DNA/RNA polymerases	RNA-dependent RNA-polymerase	Viral RNA polymerase	(Human poliovirus 1 Mahoney ) [TaxId: 12081 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A [auth 1]	Peptidase_C3	e2ijd11	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Peptidase_C3	ECOD (1.6)
A [auth 1]	RdRP_1_C	e2ijd12	A: alpha bundles	X: helical bundle domain in reverse transcriptase-like polymerases (From Topology)	H: helical bundle domain in reverse transcriptase-like polymerases (From Topology)	T: helical bundle domain in reverse transcriptase-like polymerases	F: RdRP_1_C	ECOD (1.6)
A [auth 1]	RdRP_1_N	e2ijd13	A: a+b two layers	X: Alpha-beta plaits	H: Adenylyl and guanylyl cyclase catalytic domain-like	T: Adenylyl and guanylyl cyclase catalytic domain-like	F: RdRP_1_N	ECOD (1.6)
B [auth 2]	Peptidase_C3	e2ijd21	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Peptidase_C3	ECOD (1.6)
B [auth 2]	RdRP_1_C	e2ijd22	A: alpha bundles	X: helical bundle domain in reverse transcriptase-like polymerases (From Topology)	H: helical bundle domain in reverse transcriptase-like polymerases (From Topology)	T: helical bundle domain in reverse transcriptase-like polymerases	F: RdRP_1_C	ECOD (1.6)
B [auth 2]	RdRP_1_N	e2ijd23	A: a+b two layers	X: Alpha-beta plaits	H: Adenylyl and guanylyl cyclase catalytic domain-like	T: Adenylyl and guanylyl cyclase catalytic domain-like	F: RdRP_1_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth 1]	2.40.10.120	Mainly Beta	Beta Barrel	Thrombin, subunit H		CATH (4.3.0)
B [auth 2]	2.40.10.120	Mainly Beta	Beta Barrel	Thrombin, subunit H		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth 1], B [auth 2]	PF00548	3C cysteine protease (picornain 3C) (Peptidase_C3)	3C cysteine protease (picornain 3C)	-	Family
A [auth 1], B [auth 2]	PF00680	Viral RNA-dependent RNA polymerase (RdRP_1)	Viral RNA-dependent RNA polymerase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth 1], B [auth 2]	Picornain 3C, RNA-directed RNA polymerase	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 cysteine-type peptidase activity peptidase activity catalytic activity, acting on a protein cysteine-type endopeptidase activity hydrolase 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 cysteine-type peptidase activity peptidase activity catalytic activity, acting on a protein cysteine-type endopeptidase activity hydrolase activity endopeptidase activity passive transmembrane transporter activity monoatomic ion channel activity channel activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity RNA binding binding organic cyclic compound 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 helicase activity RNA helicase activity ATP-dependent activity, acting on RNA ATP-dependent activity structural molecule activity cation binding metal ion binding	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 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 nucleic acid biosynthetic process viral genome replication biosynthetic process viral RNA genome replication viral process metabolic process macromolecule metabolic process gene expression DNA-templated transcription 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 defense response response to host defenses response to stimulus response to other organism response to defenses of other organism modulation by virus of host process response to external stimulus virus-mediated perturbation of host defense response response to biotic stimulus modulation by symbiont of host process response to host response to external biotic stimulus modulation of process of another organism modulation by virus of host cellular process import into cell transport establishment of localization vesicle-mediated transport localization symbiont entry into host cell symbiont entry into host endocytosis involved in viral entry into host cell endocytosis transport of virus symbiont-mediated perturbation of host cellular process catabolic process regulation of cellular process autophagy positive regulation of biological 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 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 organonitrogen compound metabolic process proteolysis protein metabolic process symbiont-mediated perturbation of host immune response symbiont-mediated perturbation of host defenses 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 symbiont-mediated suppression of host mRNA export from nucleus symbiont-mediated suppression of host gene expression symbiont-mediated perturbation of host gene expression	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell membrane host cell cytoplasmic vesicle membrane cellular anatomical entity host cell cytoplasm part host intracellular organelle host cell cytoplasmic vesicle host cell cytoplasm host cell part host intracellular region membrane-bounded organelle intracellular anatomical structure host intracellular membrane-bounded organelle host cellular component host intracellular part host cell membrane host cell cytoplasmic vesicle membrane cellular anatomical entity host cell cytoplasm part host intracellular organelle host cell cytoplasmic vesicle host cell cytoplasm host cell part host intracellular region membrane-bounded organelle intracellular anatomical structure membrane intracellular vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle membrane vesicle membrane cytoplasmic vesicle organelle cytoplasm vesicle organelle membrane viral capsid icosahedral viral capsid virion component T=pseudo3 icosahedral viral capsid

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth 1], B [auth 2]	IPR001205	RNA-directed RNA polymerase, C-terminal domain	Domain
A [auth 1], B [auth 2]	IPR002527	Picornavirus 2B protein	Domain
A [auth 1], B [auth 2]	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
A [auth 1], B [auth 2]	IPR000199	Peptidase C3A/C3B, picornaviral	Domain
A [auth 1], B [auth 2]	IPR001676	Picornavirus capsid	Domain
A [auth 1], B [auth 2]	IPR014759	Helicase, superfamily 3, single-stranded RNA virus	Domain
A [auth 1], B [auth 2]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A [auth 1], B [auth 2]	IPR000081	Peptidase C3, picornavirus core protein 2A	Domain
A [auth 1], B [auth 2]	IPR029053	Viral coat protein subunit	Homologous Superfamily
A [auth 1], B [auth 2]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
A [auth 1], B [auth 2]	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A [auth 1], B [auth 2]	IPR044067	Picornavirales 3C/3C-like protease domain	Domain
A [auth 1], B [auth 2]	IPR033703	Picornavirus/Calicivirus coat protein	Domain
A [auth 1], B [auth 2]	IPR014838	Poliovirus 3A protein-like	Domain
A [auth 1], B [auth 2]	IPR036203	Poliovirus core protein 3a, soluble domain	Homologous Superfamily
A [auth 1], B [auth 2]	IPR043504	Peptidase S1, PA clan, chymotrypsin-like fold	Homologous Superfamily
A [auth 1], B [auth 2]	IPR007094	RNA-directed RNA polymerase, catalytic domain	Domain
A [auth 1], B [auth 2]	IPR000605	Helicase, superfamily 3, single-stranded DNA/RNA virus	Domain

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.