3J42 | pdb_00003j42

Obstruction of Dengue Virus Maturation by Fab Fragments of the 2H2 Antibody

External Resource: Annotation

Domain Annotation: ECOD Classification
IMGT Antibody Annotation
SAbDab Antibody Annotation
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)
L	C1-set_4	e3j42L1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
L	V-set	e3j42L2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
J	C1-set_4	e3j42J1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
J	V-set	e3j42J2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
H	C1-set_4	e3j42H1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
H	V-set	e3j42H2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
K	V-set_8	e3j42K2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
K	C1-set_1	e3j42K1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
I	V-set_8	e3j42I2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
I	C1-set_1	e3j42I1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
G	V-set_8	e3j42G2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
G	C1-set_1	e3j42G1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
F	Flavi_propep	e3j42F1	A: beta sandwiches	X: HSP40/DnaJ peptide-binding domain (From Topology)	H: HSP40/DnaJ peptide-binding domain (From Topology)	T: HSP40/DnaJ peptide-binding domain	F: Flavi_propep	ECOD (1.6)
E	Flavi_propep	e3j42E1	A: beta sandwiches	X: HSP40/DnaJ peptide-binding domain (From Topology)	H: HSP40/DnaJ peptide-binding domain (From Topology)	T: HSP40/DnaJ peptide-binding domain	F: Flavi_propep	ECOD (1.6)
D	Flavi_propep	e3j42D1	A: beta sandwiches	X: HSP40/DnaJ peptide-binding domain (From Topology)	H: HSP40/DnaJ peptide-binding domain (From Topology)	T: HSP40/DnaJ peptide-binding domain	F: Flavi_propep	ECOD (1.6)
C	Flavi_glycop_C	e3j42C1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Flavi_glycop_C	ECOD (1.6)
C	Flavi_glycoprot	e3j42C2	A: beta complex topology	X: Viral glycoprotein, central and dimerisation domains-like	H: Viral glycoprotein, central and dimerisation domains (From Topology)	T: Viral glycoprotein, central and dimerisation domains	F: Flavi_glycoprot	ECOD (1.6)
B	Flavi_glycop_C	e3j42B1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Flavi_glycop_C	ECOD (1.6)
B	Flavi_glycoprot	e3j42B2	A: beta complex topology	X: Viral glycoprotein, central and dimerisation domains-like	H: Viral glycoprotein, central and dimerisation domains (From Topology)	T: Viral glycoprotein, central and dimerisation domains	F: Flavi_glycoprot	ECOD (1.6)
A	Flavi_glycop_C	e3j42A1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Flavi_glycop_C	ECOD (1.6)
A	Flavi_glycoprot	e3j42A2	A: beta complex topology	X: Viral glycoprotein, central and dimerisation domains-like	H: Viral glycoprotein, central and dimerisation domains (From Topology)	T: Viral glycoprotein, central and dimerisation domains	F: Flavi_glycoprot	ECOD (1.6)

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
H, J, L	2H2 Fab (MOPC 21 related), anti-dengue virus 2	L-KAPPA	Mus musculus (house mouse)	IGKV6-2001, IGKJ201, IGKC01, IGKC02	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-2A_KAPPA	IMGT (202549-0)
G, I, K	2H2 Fab (MOPC 21 related), anti-dengue virus 2	VH-CH1	Mus musculus (house mouse)	IGHV5-1702, IGHJ401, IGHG2A01, IGHG2A02	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-2A_KAPPA	IMGT (202549-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
H, J, L	Light Chain	IGKV6	Kappa	prm	SAbDab (2025-12-19)
G, I, K	Heavy Chain	IGHV5	-	prm	SAbDab (2025-12-19)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
H, J, L	PF07686	Immunoglobulin V-set domain (V-set)	Immunoglobulin V-set domain	This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.	Domain
H, J, L	PF07654	Immunoglobulin C1-set domain (C1-set)	Immunoglobulin C1-set domain		Domain
G, I, K	PF07686	Immunoglobulin V-set domain (V-set)	Immunoglobulin V-set domain	This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.	Domain
G, I, K	PF07654	Immunoglobulin C1-set domain (C1-set)	Immunoglobulin C1-set domain		Domain
D, E, F	PF01570	Flavivirus polyprotein propeptide (Flavi_propep)	Flavivirus polyprotein propeptide	-	Family
A, B, C	PF00869	Flavivirus glycoprotein, central and dimerisation domains (Flavi_glycoprot)	Flavivirus glycoprotein, central and dimerisation domains		Domain
A, B, C	PF02832	Flavivirus glycoprotein, immunoglobulin-like domain (Flavi_glycop_C)	Flavivirus glycoprotein, immunoglobulin-like domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
H, J, L	Ig kappa chain V-V region MOPC 21, Anti-colorectal carcinoma light chain chimera	-	response to stimulus immune response immune system process adaptive immune response	protein-containing complex immunoglobulin complex cell periphery cellular anatomical structure plasma membrane membrane extracellular region
G, I, K	Ig heavy chain V region MOPC 21, Igh protein chimera	-	response to stimulus immune response immune system process adaptive immune response	protein-containing complex immunoglobulin complex
D, E, F	PrM	protein binding binding protein dimerization activity	viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction import into cell receptor-mediated endocytosis of virus by host cell transport establishment of localization viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction import into cell receptor-mediated endocytosis of virus by host cell transport establishment of localization vesicle-mediated transport localization symbiont entry into host cell clathrin-dependent endocytosis symbiont entry into host cellular process clathrin-dependent endocytosis of virus by host cell receptor-mediated endocytosis endocytosis endocytosis involved in viral entry into host cell symbiont-mediated perturbation of host defense response 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 immune response symbiont-mediated perturbation of host innate immune response modulation of process of another organism	cellular anatomical structure membrane virion component virion membrane extracellular region host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum host cell membrane other organism part host cell cytoplasm part host intracellular organelle host cell cytoplasm cellular anatomical structure membrane virion component virion membrane extracellular region host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum host cell membrane other organism part host cell cytoplasm part host intracellular organelle host cell cytoplasm host cell part host cell endomembrane system host intracellular region host cell endoplasmic reticulum membrane viral membrane viral envelope
A, B, C	Envelope protein E	RNA methyltransferase activity O-methyltransferase activity methyltransferase cap1 activity catalytic activity, acting on RNA transferase activity, transferring one-carbon groups catalytic activity, acting on a nucleic acid transferase activity methyltransferase activity catalytic activity RNA binding double-stranded RNA binding binding nucleic acid binding RNA-directed RNA polymerase activity RNA methyltransferase activity O-methyltransferase activity methyltransferase cap1 activity catalytic activity, acting on RNA transferase activity, transferring one-carbon groups catalytic activity, acting on a nucleic acid transferase activity methyltransferase activity catalytic activity RNA binding double-stranded RNA binding binding nucleic acid binding RNA-directed RNA polymerase activity 5'-3' RNA polymerase activity RNA polymerase activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups peptidase activity catalytic activity, acting on a protein serine hydrolase activity serine-type peptidase activity hydrolase activity serine-type endopeptidase activity endopeptidase activity 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 molecular adaptor 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 protein binding protein dimerization activity cation binding metal ion binding S-adenosylmethionine-dependent methyltransferase activity mRNA 5'-cap (guanine-N7-)-methyltransferase activity N-methyltransferase activity mRNA methyltransferase activity lipid binding passive transmembrane transporter activity channel activity transporter activity transmembrane transporter activity structural molecule activity	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 cellular process biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host process symbiont-mediated perturbation of host autophagy modulation of process of another organism symbiont-mediated activation of host autophagy biological process involved in interaction with host biological process involved in symbiotic interaction 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 fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell symbiont-mediated suppression of host JAK-STAT cascade symbiont-mediated suppression of host JAK-STAT cascade via inhibition of STAT2 activity symbiont-mediated suppression of host JAK-STAT cascade via inhibition of STAT activity import into cell receptor-mediated endocytosis of virus by host cell transport establishment of localization vesicle-mediated transport localization symbiont entry into host cell clathrin-dependent endocytosis symbiont entry into host clathrin-dependent endocytosis of virus by host cell receptor-mediated endocytosis endocytosis endocytosis involved in viral entry into host cell transmembrane transport monoatomic ion transmembrane transport monoatomic ion transport symbiont-mediated perturbation of host defense response 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 immune response symbiont-mediated suppression of host innate immune response symbiont-mediated perturbation of host innate immune response symbiont-mediated suppression of cytoplasmic pattern recognition receptor signaling pathway virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host symbiont-mediated suppression of host JAK-STAT cascade via inhibition of host TYK2 activity proteolysis protein metabolic process	cellular anatomical structure membrane host intracellular membrane-bounded organelle host cellular component host intracellular part other organism part host cell mitochondrion host cell cytoplasm part host intracellular organelle host cell cytoplasm host cell part host intracellular region host cell endoplasmic reticulum host cell membrane cellular anatomical structure membrane host intracellular membrane-bounded organelle host cellular component host intracellular part other organism part host cell mitochondrion host cell cytoplasm part host intracellular organelle host cell cytoplasm host cell part host intracellular region host cell endoplasmic reticulum host cell membrane host cell endomembrane system host cell endoplasmic reticulum membrane viral capsid virion component host cell perinuclear region of cytoplasm virion membrane extracellular region host cell nucleus viral membrane viral envelope

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
H, J, L	IPR050150	Immunoglobulin Variable Light Chain	Family
H, J, L	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
H, J, L	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
H, J, L	IPR013106	Immunoglobulin V-set domain	Domain
H, J, L	IPR003599	Immunoglobulin domain subtype	Domain
H, J, L	IPR007110	Immunoglobulin-like domain	Domain
H, J, L	IPR003597	Immunoglobulin C1-set	Domain
H, J, L	IPR050150	Immunoglobulin Variable Light Chain	Family
H, J, L	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
H, J, L	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
H, J, L	IPR013106	Immunoglobulin V-set domain	Domain
H, J, L	IPR003599	Immunoglobulin domain subtype	Domain
H, J, L	IPR007110	Immunoglobulin-like domain	Domain
H, J, L	IPR003006	Immunoglobulin/major histocompatibility complex, conserved site	Conserved Site
G, I, K	IPR003597	Immunoglobulin C1-set	Domain
G, I, K	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
G, I, K	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
G, I, K	IPR013106	Immunoglobulin V-set domain	Domain
G, I, K	IPR003599	Immunoglobulin domain subtype	Domain
G, I, K	IPR007110	Immunoglobulin-like domain	Domain
G, I, K	IPR050380	Immune Recognition and Response Modulators	Family
G, I, K	IPR003006	Immunoglobulin/major histocompatibility complex, conserved site	Conserved Site
D, E, F	IPR038345	Flavivirus envelope glycoprotein E, Stem/Anchor domain superfamily	Homologous Superfamily
D, E, F	IPR038688	Flavivirus polyprotein propeptide superfamily	Homologous Superfamily
D, E, F	IPR026470	Flavivirus envelope glycoprotein E, Stem/Anchor domain	Domain
D, E, F	IPR011998	Envelope glycoprotein E, central and dimerisation domain, flavivirus	Domain
D, E, F	IPR013755	Flaviviral glycoprotein E, central domain, subdomain 1	Homologous Superfamily
D, E, F	IPR038055	Flaviviral glycoprotein E, dimerisation domain	Homologous Superfamily
D, E, F	IPR014756	Immunoglobulin E-set	Homologous Superfamily
D, E, F	IPR027287	Glycoprotein E, immunoglobulin-like domain, flavivirus	Domain
D, E, F	IPR013756	Flaviviral glycoprotein E, central domain, subdomain 2	Homologous Superfamily
D, E, F	IPR000336	Flavivirus/Alphavirus glycoprotein, immunoglobulin-like domain superfamily	Homologous Superfamily
D, E, F	IPR038302	Envelope glycoprotein M superfamily, flavivirus	Homologous Superfamily
D, E, F	IPR002535	Flavivirus polyprotein propeptide	Domain
D, E, F	IPR036253	Flavivirus glycoprotein, central and dimerisation domain superfamily	Homologous Superfamily
D, E, F	IPR000069	Envelope glycoprotein M, flavivirus	Domain
A, B, C	IPR000208	RNA-directed RNA polymerase, fingers/palm subdomains, flavivirus	Domain
A, B, C	IPR014756	Immunoglobulin E-set	Homologous Superfamily
A, B, C	IPR001122	Capsid protein C, flavivirus	Domain
A, B, C	IPR027287	Glycoprotein E, immunoglobulin-like domain, flavivirus	Domain
A, B, C	IPR014412	Genome polyprotein, Flavivirus	Family
A, B, C	IPR036253	Flavivirus glycoprotein, central and dimerisation domain superfamily	Homologous Superfamily
A, B, C	IPR011492	Non-structural protein NS3-like, DEAD-box helicase, flavivirus	Domain
A, B, C	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B, C	IPR026490	mRNA cap 0/1 methyltransferase	Domain
A, B, C	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
A, B, C	IPR001650	Helicase, C-terminal domain-like	Domain
A, B, C	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
A, B, C	IPR013755	Flaviviral glycoprotein E, central domain, subdomain 1	Homologous Superfamily
A, B, C	IPR000752	Flavivirus non-structural protein NS2A	Domain
A, B, C	IPR047530	RNA-dependent RNA polymerase, flavivirus	Domain
A, B, C	IPR049486	Flavivridae NS3 helicase, C-terminal helical domain	Domain
A, B, C	IPR046811	RNA-directed RNA polymerase, thumb subdomain, flavivirus	Domain
A, B, C	IPR038055	Flaviviral glycoprotein E, dimerisation domain	Homologous Superfamily
A, B, C	IPR002877	Ribosomal RNA methyltransferase, FtsJ domain	Domain
A, B, C	IPR038302	Envelope glycoprotein M superfamily, flavivirus	Homologous Superfamily
A, B, C	IPR000069	Envelope glycoprotein M, flavivirus	Domain
A, B, C	IPR038345	Flavivirus envelope glycoprotein E, Stem/Anchor domain superfamily	Homologous Superfamily
A, B, C	IPR038688	Flavivirus polyprotein propeptide superfamily	Homologous Superfamily
A, B, C	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Homologous Superfamily
A, B, C	IPR026470	Flavivirus envelope glycoprotein E, Stem/Anchor domain	Domain
A, B, C	IPR011998	Envelope glycoprotein E, central and dimerisation domain, flavivirus	Domain
A, B, C	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A, B, C	IPR037172	Flavivirus capsid protein C superfamily	Homologous Superfamily
A, B, C	IPR000404	Flavivirus non-structural protein NS4A	Domain
A, B, C	IPR000487	Non-structural protein NS2B, flavivirus	Domain
A, B, C	IPR001528	Flavivirus non-structural protein NS4B	Domain
A, B, C	IPR001157	Non-structural protein NS1, flavivirus	Domain
A, B, C	IPR013756	Flaviviral glycoprotein E, central domain, subdomain 2	Homologous Superfamily
A, B, C	IPR001850	Non-structural protein NS3, peptidase S7, flavivirus	Domain
A, B, C	IPR000336	Flavivirus/Alphavirus glycoprotein, immunoglobulin-like domain superfamily	Homologous Superfamily
A, B, C	IPR002535	Flavivirus polyprotein propeptide	Domain
A, B, C	IPR043504	Peptidase S1, PA clan, chymotrypsin-like fold	Homologous Superfamily
A, B, C	IPR007094	RNA-directed RNA polymerase, catalytic domain	Domain