Annotations: 6GV4

High-resolution Cryo-EM of Fab-labeled human parechovirus 3

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
SAbDab Antibody 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)
E [auth H]	d6gv4h_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
F [auth L]	d6gv4l_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
E [auth H]	Ribosomal_L1	e6gv4H1	A: beta barrels	X: N-cbl like	H: HTH	T: SH3	F: Ribosomal_L1	ECOD (v294.2)
F [auth L]	Ribosomal_L1	e6gv4L1	A: beta barrels	X: N-cbl like	H: HTH	T: SH3	F: Ribosomal_L1	ECOD (v294.2)
D [auth C]	Ribosomal_L1	e6gv4C1	A: beta barrels	X: N-cbl like	H: HTH	T: SH3	F: Ribosomal_L1	ECOD (v294.2)
C [auth B]	Ribosomal_L1	e6gv4B1	A: beta barrels	X: N-cbl like	H: HTH	T: SH3	F: Ribosomal_L1	ECOD (v294.2)
B [auth A]	Ribosomal_L1	e6gv4A1	A: beta barrels	X: N-cbl like	H: HTH	T: SH3	F: Ribosomal_L1	ECOD (v294.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth C]	2.60.120.20	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)

IMGT Antibody Annotation IMGT Database Homepage

Chain	Protein Name	Description	Organism Name	Gene Allele Name(s)	Domain Name(s)	Receptor Type	Receptor Description	Provenance Source
E [auth H]	Fab AT12-015	VH	Homo sapiens (human)	IGHV3-2301, IGHV3-23D01, IGHJ401, IGHJ402, IGHJ4*03	V-DOMAIN VH	IG	FV-HEAVY_KAPPA	IMGT (202617-0)
F [auth L]	Fab AT12-015	V-KAPPA	Homo sapiens (human)	IGKV1-501, IGKV1-503, IGKJ401, IGKJ402	V-DOMAIN V-KAPPA	IG	FV-HEAVY_KAPPA	IMGT (202617-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
E [auth H]	Heavy Chain	IGHV3	-	vp1 \| vp0	SAbDab (2026-05-08)
F [auth L]	Light Chain	IGKV1	Kappa	vp1 \| vp0	SAbDab (2026-05-08)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth D]	RNA (5'-R(UPGPGPUPAPUPUPU)-3')	-	-	-
E [auth H]	AT12-015 antibody variable heavy	-	-	-
F [auth L]	AT12-015 antibody variable light	-	-	-
D [auth C]	VP3	structural molecule activity	virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell viral process viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction symbiont entry into host cell symbiont entry into host	host cellular component cellular anatomical structure host cell other organism part viral capsid virion component
C [auth B]	VP1	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 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 biological process involved in interspecies interaction between organisms symbiont entry into host cell symbiont entry into host biological process involved in interaction with host biological process involved in symbiotic interaction transmembrane transport localization transport monoatomic ion transmembrane transport monoatomic ion transport establishment of localization gene expression DNA-templated transcription virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host proteolysis protein metabolic process	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell nucleus other organism part host cell nucleolus host cell nuclear part host intracellular organelle cellular anatomical structure host cell part host intracellular region host cell membrane host cell cytoplasmic vesicle membrane host cell cytoplasm part host intracellular membrane-bounded organelle host cellular component host intracellular part host cell nucleus other organism part host cell nucleolus host cell nuclear part host intracellular organelle cellular anatomical structure host cell part host intracellular region host cell membrane host cell cytoplasmic vesicle membrane host cell cytoplasm part host cell cytoplasmic vesicle host cell cytoplasm viral capsid icosahedral viral capsid virion component T=pseudo3 icosahedral viral capsid
B [auth A]	VP0	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 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 biological process involved in interspecies interaction between organisms symbiont entry into host cell symbiont entry into host biological process involved in interaction with host biological process involved in symbiotic interaction transmembrane transport localization transport monoatomic ion transmembrane transport monoatomic ion transport establishment of localization gene expression DNA-templated transcription virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host proteolysis protein metabolic process	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell nucleus other organism part host cell nucleolus host cell nuclear part host intracellular organelle cellular anatomical structure host cell part host intracellular region host cell membrane host cell cytoplasmic vesicle membrane host cell cytoplasm part host intracellular membrane-bounded organelle host cellular component host intracellular part host cell nucleus other organism part host cell nucleolus host cell nuclear part host intracellular organelle cellular anatomical structure host cell part host intracellular region host cell membrane host cell cytoplasmic vesicle membrane host cell cytoplasm part host cell cytoplasmic vesicle host cell cytoplasm viral capsid icosahedral viral capsid virion component T=pseudo3 icosahedral viral capsid

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D [auth C]	IPR029053	Viral coat protein subunit	Homologous Superfamily
D [auth C]	IPR001676	Picornavirus capsid	Domain
D [auth C]	IPR033703	Picornavirus/Calicivirus coat protein	Domain
C [auth B]	IPR007053	LRAT domain	Domain
C [auth B]	IPR001205	RNA-directed RNA polymerase, C-terminal domain	Domain
C [auth B]	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
C [auth B]	IPR009407	Viral polyprotein, parechovirus P3B	Domain
C [auth B]	IPR000199	Peptidase C3A/C3B, picornaviral	Domain
C [auth B]	IPR001676	Picornavirus capsid	Domain
C [auth B]	IPR014759	Helicase, superfamily 3, single-stranded RNA virus	Domain
C [auth B]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
C [auth B]	IPR043504	Peptidase_S1_PA_chymotrypsin	Unknown
C [auth B]	IPR029053	Viral coat protein subunit	Homologous Superfamily
C [auth B]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
C [auth B]	IPR004004	Helicase/polymerase/peptidase polyprotein, Calicivirus-type	Family
C [auth B]	IPR009419	Viral polyprotein, parechovirus P3A	Domain
C [auth B]	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
C [auth B]	IPR044067	Picornavirales 3C/3C-like protease domain	Domain
C [auth B]	IPR033703	Picornavirus/Calicivirus coat protein	Domain
C [auth B]	IPR007094	RNA-directed RNA polymerase, catalytic domain	Domain
C [auth B]	IPR000605	Helicase, superfamily 3, single-stranded DNA/RNA virus	Domain
B [auth A]	IPR007053	LRAT domain	Domain
B [auth A]	IPR001205	RNA-directed RNA polymerase, C-terminal domain	Domain
B [auth A]	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
B [auth A]	IPR009407	Viral polyprotein, parechovirus P3B	Domain
B [auth A]	IPR000199	Peptidase C3A/C3B, picornaviral	Domain
B [auth A]	IPR001676	Picornavirus capsid	Domain
B [auth A]	IPR014759	Helicase, superfamily 3, single-stranded RNA virus	Domain
B [auth A]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
B [auth A]	IPR043504	Peptidase_S1_PA_chymotrypsin	Unknown
B [auth A]	IPR029053	Viral coat protein subunit	Homologous Superfamily
B [auth A]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
B [auth A]	IPR004004	Helicase/polymerase/peptidase polyprotein, Calicivirus-type	Family
B [auth A]	IPR009419	Viral polyprotein, parechovirus P3A	Domain
B [auth A]	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
B [auth A]	IPR044067	Picornavirales 3C/3C-like protease domain	Domain
B [auth A]	IPR033703	Picornavirus/Calicivirus coat protein	Domain
B [auth A]	IPR007094	RNA-directed RNA polymerase, catalytic domain	Domain
B [auth A]	IPR000605	Helicase, superfamily 3, single-stranded DNA/RNA virus	Domain