3SJO

structure of EV71 3C in complex with Rupintrivir (AG7088)

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)
A	d3sjoa_	All beta proteins	Trypsin-like serine proteases	Trypsin-like serine proteases	Viral cysteine protease of trypsin fold	3C cysteine protease (picornain 3C)	(Enterovirus A71 ) [TaxId: 39054 ],	SCOPe (2.08)
C	d3sjoc_	All beta proteins	Trypsin-like serine proteases	Trypsin-like serine proteases	Viral cysteine protease of trypsin fold	3C cysteine protease (picornain 3C)	(Enterovirus A71 ) [TaxId: 39054 ],	SCOPe (2.08)
D	d3sjod_	All beta proteins	Trypsin-like serine proteases	Trypsin-like serine proteases	Viral cysteine protease of trypsin fold	3C cysteine protease (picornain 3C)	(Enterovirus A71 ) [TaxId: 39054 ],	SCOPe (2.08)
E	d3sjoe_	All beta proteins	Trypsin-like serine proteases	Trypsin-like serine proteases	Viral cysteine protease of trypsin fold	3C cysteine protease (picornain 3C)	(Enterovirus A71 ) [TaxId: 39054 ],	SCOPe (2.08)
F	d3sjof_	All beta proteins	Trypsin-like serine proteases	Trypsin-like serine proteases	Viral cysteine protease of trypsin fold	3C cysteine protease (picornain 3C)	(Enterovirus A71 ) [TaxId: 39054 ],	SCOPe (2.08)
G	d3sjog_	All beta proteins	Trypsin-like serine proteases	Trypsin-like serine proteases	Viral cysteine protease of trypsin fold	3C cysteine protease (picornain 3C)	(Enterovirus A71 ) [TaxId: 39054 ],	SCOPe (2.08)
H	d3sjoh_	All beta proteins	Trypsin-like serine proteases	Trypsin-like serine proteases	Viral cysteine protease of trypsin fold	3C cysteine protease (picornain 3C)	(Enterovirus A71 ) [TaxId: 39054 ],	SCOPe (2.08)
B	d3sjob_	All beta proteins	Trypsin-like serine proteases	Trypsin-like serine proteases	Viral cysteine protease of trypsin fold	3C cysteine protease (picornain 3C)	(Enterovirus A71 ) [TaxId: 39054 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Viral cysteine protease of trypsin fold, (3C/2A)Pro-like	8071516	4007776	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Trypsin-like serine proteases	8071517	3000114	SCOP2 (2022-06-29)
C	SCOP2B Superfamily	Trypsin-like serine proteases	8071517	3000114	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Trypsin-like serine proteases	8071517	3000114	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Trypsin-like serine proteases	8071517	3000114	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Trypsin-like serine proteases	8071517	3000114	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Trypsin-like serine proteases	8071517	3000114	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Trypsin-like serine proteases	8071517	3000114	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Trypsin-like serine proteases	8071517	3000114	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Peptidase_C3	e3sjoA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Peptidase_C3	ECOD (1.6)
C	Peptidase_C3	e3sjoC1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Peptidase_C3	ECOD (1.6)
D	Peptidase_C3	e3sjoD1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Peptidase_C3	ECOD (1.6)
E	Peptidase_C3	e3sjoE1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Peptidase_C3	ECOD (1.6)
F	Peptidase_C3	e3sjoF1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Peptidase_C3	ECOD (1.6)
G	Peptidase_C3	e3sjoG1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Peptidase_C3	ECOD (1.6)
H	Peptidase_C3	e3sjoH1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Peptidase_C3	ECOD (1.6)
B	Peptidase_C3	e3sjoB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Peptidase_C3	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.40.10.10	Mainly Beta	Beta Barrel	Thrombin, subunit H	Trypsin-like serine proteases	CATH (4.3.0)
C	2.40.10.10	Mainly Beta	Beta Barrel	Thrombin, subunit H	Trypsin-like serine proteases	CATH (4.3.0)
D	2.40.10.10	Mainly Beta	Beta Barrel	Thrombin, subunit H	Trypsin-like serine proteases	CATH (4.3.0)
E	2.40.10.10	Mainly Beta	Beta Barrel	Thrombin, subunit H	Trypsin-like serine proteases	CATH (4.3.0)
F	2.40.10.10	Mainly Beta	Beta Barrel	Thrombin, subunit H	Trypsin-like serine proteases	CATH (4.3.0)
G	2.40.10.10	Mainly Beta	Beta Barrel	Thrombin, subunit H	Trypsin-like serine proteases	CATH (4.3.0)
H	2.40.10.10	Mainly Beta	Beta Barrel	Thrombin, subunit H	Trypsin-like serine proteases	CATH (4.3.0)
B	2.40.10.10	Mainly Beta	Beta Barrel	Thrombin, subunit H	Trypsin-like serine proteases	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H	3C protease	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 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 ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity, acting on acid anhydrides ATP-dependent activity passive transmembrane transporter activity channel activity transporter activity transmembrane transporter activity helicase activity RNA helicase activity ATP-dependent activity, acting on RNA structural molecule activity cation 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 transmembrane transport localization transport monoatomic ion transmembrane transport monoatomic ion transport establishment of localization gene expression DNA-templated transcription symbiont-mediated disruption of host anatomical structure biological process involved in interspecies interaction between organisms symbiont-mediated disruption of host cellular anatomical structure biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated perturbation of host membrane symbiont genome entry into host cell via pore formation in plasma membrane symbiont entry into host cell symbiont entry into host 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 defense response symbiont-mediated perturbation of host process modulation by virus of host process virus-mediated perturbation of host defense response modulation of process of another organism modulation by virus of host cellular process import into cell vesicle-mediated transport 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 regulation of autophagy 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 catabolic process positive regulation of catabolic process regulation of metabolic process proteolysis protein metabolic process response to stimulus symbiont-mediated suppression of host pathogen-associated molecular pattern receptor signaling pathway symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of MDA-5 activity response to biotic stimulus symbiont-mediated suppression of host immune response symbiont-mediated suppression of host innate 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 response to host defenses response to other organism symbiont-mediated perturbation of host immune response symbiont-mediated perturbation of host defenses response to defenses of other organism response to external stimulus symbiont-mediated suppression of host signal transduction pathway symbiont-mediated suppression of cytoplasmic pattern recognition receptor signaling pathway symbiont-mediated suppression of host mRNA export from nucleus	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell membrane host cell cytoplasmic vesicle membrane host cell cytoplasm part host intracellular organelle host cell cytoplasmic vesicle cellular anatomical structure 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 host cell cytoplasm part host intracellular organelle host cell cytoplasmic vesicle cellular anatomical structure 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 host cell nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H	IPR001205	RNA-directed RNA polymerase, C-terminal domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR002527	Picornavirus 2B protein	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR003593	AAA+ ATPase domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR003138	Picornavirus coat protein VP4	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR000199	Peptidase C3A/C3B, picornaviral	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR001676	Picornavirus capsid	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR014759	Helicase, superfamily 3, single-stranded RNA virus	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR000081	Peptidase C3, picornavirus core protein 2A	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR029053	Viral coat protein subunit	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR044067	Picornavirales 3C/3C-like protease domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR033703	Picornavirus/Calicivirus coat protein	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR014838	Poliovirus 3A protein-like	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR036203	Poliovirus core protein 3a, soluble domain	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR043504	Peptidase S1, PA clan, chymotrypsin-like fold	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR007094	RNA-directed RNA polymerase, catalytic domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR000605	Helicase, superfamily 3, single-stranded DNA/RNA virus	Domain