Annotations: 11ZV

Structure of the Porcine deltacoronavirus (PDCoV) receptor-binding domain bound to the RBD minibinder 11, the PD3 Fab, and the Kappa light chain nanobody (local refinement)

External Resource: Annotation

Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	PDCoV IL121_2014 receptor binding domain	phosphoric ester hydrolase activity phosphoprotein phosphatase activity catalytic activity, acting on a protein hydrolase activity, acting on ester bonds protein tyrosine phosphatase activity phosphatase activity hydrolase activity catalytic activity identical protein binding protein binding binding protein homodimerization activity protein dimerization activity heparin binding phosphoric ester hydrolase activity phosphoprotein phosphatase activity catalytic activity, acting on a protein hydrolase activity, acting on ester bonds protein tyrosine phosphatase activity phosphatase activity hydrolase activity catalytic activity identical protein binding protein binding binding protein homodimerization activity protein dimerization activity heparin binding glycosaminoglycan binding carbohydrate derivative binding sulfur compound binding heparan sulfate proteoglycan binding proteoglycan binding	multicellular organismal process regulation of developmental process cellular developmental process cell projection organization negative regulation of biological process cell development negative regulation of dendritic spine development regulation of dendritic spine development neuron projection development cellular component organization neurogenesis multicellular organism development neuron differentiation dendrite development cell differentiation multicellular organismal process regulation of developmental process cellular developmental process cell projection organization negative regulation of biological process cell development negative regulation of dendritic spine development regulation of dendritic spine development neuron projection development cellular component organization neurogenesis multicellular organism development neuron differentiation dendrite development cell differentiation anatomical structure development cellular component organization or biogenesis system development developmental process dendritic spine development regulation of biological process plasma membrane bounded cell projection organization negative regulation of developmental process biological regulation nervous system development generation of neurons neuron development cellular process regulation of growth regulation of cellular process axonogenesis regulation of cellular component size developmental growth regulation of cell differentiation regulation of neurogenesis regulation of cell development cell projection morphogenesis negative regulation of growth neuron projection morphogenesis regulation of biological quality negative regulation of cellular component organization regulation of cell projection organization negative regulation of cell growth developmental growth involved in morphogenesis negative regulation of axonogenesis negative regulation of developmental growth negative regulation of multicellular organismal process regulation of neuron projection development regulation of collateral sprouting regulation of cellular component organization plasma membrane bounded cell projection morphogenesis cell growth cell morphogenesis regulation of nervous system development negative regulation of neurogenesis regulation of extent of cell growth regulation of axonogenesis negative regulation of cellular process negative regulation of nervous system development regulation of multicellular organismal process negative regulation of cell differentiation negative regulation of cell projection organization regulation of anatomical structure morphogenesis regulation of cell size regulation of multicellular organismal development collateral sprouting regulation of developmental growth developmental cell growth growth axon development regulation of cell growth cell morphogenesis involved in neuron differentiation negative regulation of neuron projection development anatomical structure morphogenesis negative regulation of cell development negative regulation of collateral sprouting regulation of plasma membrane bounded cell projection organization regulation of anatomical structure size axon extension regulation of axon extension neuron projection extension negative regulation of axon extension cell adhesion cell junction organization cell-cell adhesion synaptic membrane adhesion synapse organization cellular response to stimulus response to stimulus signaling signal transduction cell communication regulation of cellular response to stress negative regulation of neuron projection regeneration regeneration neuron projection regeneration response to wounding regulation of axon regeneration response to external stimulus regulation of response to stimulus negative regulation of response to external stimulus regulation of neuron projection regeneration negative regulation of axon regeneration regulation of response to external stimulus response to axon injury regulation of response to wounding cellular response to stress axon regeneration regulation of response to stress response to stress negative regulation of response to stimulus negative regulation of response to wounding protein dephosphorylation dephosphorylation primary metabolic process macromolecule modification phosphate-containing compound metabolic process metabolic process protein metabolic process macromolecule metabolic process protein modification process phosphorus metabolic process peptidyl-tyrosine dephosphorylation 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 receptor-mediated virion attachment to host cell 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 membrane organization membrane fusion fusion of virus membrane with host plasma membrane symbiont entry into host cell symbiont entry into host endocytosis involved in viral entry into host cell	postsynaptic specialization membrane postsynaptic specialization synapse membrane plasma membrane postsynaptic density membrane synaptic membrane cell periphery postsynaptic density postsynapse cellular anatomical structure neuron to neuron synapse organelle cell junction postsynaptic specialization membrane postsynaptic specialization synapse membrane plasma membrane postsynaptic density membrane synaptic membrane cell periphery postsynaptic density postsynapse cellular anatomical structure neuron to neuron synapse organelle cell junction postsynaptic membrane asymmetric synapse plasma membrane region somatodendritic compartment cell body perikaryon neuronal cell body growth cone axon cell projection distal axon neuron projection plasma membrane bounded cell projection site of polarized growth membrane-bounded organelle intracellular anatomical structure intracellular vesicle transport vesicle membrane endomembrane system intracellular organelle presynapse bounding membrane of organelle cytoplasmic vesicle vesicle membrane synaptic vesicle synaptic vesicle membrane vesicle transport vesicle exocytic vesicle membrane intracellular membrane-bounded organelle cytoplasmic vesicle membrane secretory vesicle cytoplasm organelle membrane exocytic vesicle virion component virion membrane host intracellular membrane-bounded organelle host cellular component host intracellular part host cell membrane other organism part host cell cytoplasm part host intracellular organelle host cell endoplasmic reticulum-Golgi intermediate compartment membrane host cell endoplasmic reticulum-Golgi intermediate compartment host cell cytoplasm host cell part host intracellular region viral membrane viral envelope
B	RBD minibinder 11	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A	IPR003598	Immunoglobulin subtype 2	Domain
A	IPR003595	Protein-tyrosine phosphatase, catalytic	Domain
A	IPR003599	Immunoglobulin domain subtype	Domain
A	IPR013098	Immunoglobulin I-set	Domain
A	IPR016130	Protein-tyrosine phosphatase, active site	Active Site
A	IPR050713	Receptor-type Tyrosine-protein Phosphatases/Ushers	Family
A	IPR029021	Protein-tyrosine phosphatase-like	Homologous Superfamily
A	IPR003961	Fibronectin type III	Domain
A	IPR000242	Tyrosine-specific protein phosphatase, PTPase domain	Domain
A	IPR000387	Tyrosine-specific protein phosphatases domain	Domain
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR007110	Immunoglobulin-like domain	Domain
A	IPR036116	Fibronectin type III superfamily	Homologous Superfamily
A	IPR002551	Spike glycoprotein S1, coronavirus	Domain
A	IPR044874	Spike glycoprotein S2, coronavirus, heptad repeat 2	Domain
A	IPR043614	Spike glycoprotein S2, coronavirus, C-terminal	Domain
A	IPR044873	Spike glycoprotein S2, coronavirus, heptad repeat 1	Domain
A	IPR043473	Spike glycoprotein S2 superfamily, coronavirus	Homologous Superfamily
A	IPR043607	Coronavirus spike glycoprotein S1, C-terminal	Domain
A	IPR002552	Spike glycoprotein S2, coronavirus	Domain

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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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.

11ZV | pdb_000011zv

Structure of the Porcine deltacoronavirus (PDCoV) receptor-binding domain bound to the RBD minibinder 11, the PD3 Fab, and the Kappa light chain nanobody (local refinement)

External Resource: Annotation

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage