9H0B | pdb_00009h0b

Crystal structure of the Porcine Hemagglutinating Encephalomyelitis Virus (PHEV) receptor binding domain in complex with porcine DPEP1.

External Resource: Annotation

Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth A], D	PF09408	Betacoronavirus spike glycoprotein S1, receptor binding (bCoV_S1_RBD)	Betacoronavirus spike glycoprotein S1, receptor binding	This entry represents the receptor binding domain (S1 RBD) of the betacoronavirus spike glycoprotein. The spike glycoprotein is arranged in trimers on the surface of the viral membrane and is essential for viral entry. The spike protein is translat ...	This entry represents the receptor binding domain (S1 RBD) of the betacoronavirus spike glycoprotein. The spike glycoprotein is arranged in trimers on the surface of the viral membrane and is essential for viral entry. The spike protein is translated as a large polypeptide that is subsequently cleaved to the distal S1, responsible for receptor binding, and the membrane-anchored S2 responsible for membrane fusion [1]. The coronavirus (SARS-CoV) S1 subunit is composed of two distinct domains: an N-terminal domain (S1 NTD) and a receptor-binding domain (S1 RBD) also referred to as the S1 CTD or domain B. Each of these domains have been implicated in binding to host receptors. However, most coronaviruses are not known to utilise both the S1 NTD and S1 RBD for viral entry [2]. SARS-CoV makes use of its S1 RBD to bind to the human angiotensin-converting enzyme 2 (ACE2) as its host receptor [3,4].	Domain
A [auth B], C	PF01244	Membrane dipeptidase (Peptidase family M19) (Peptidase_M19)	Membrane dipeptidase (Peptidase family M19)		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth A], D	Spike glycoprotein	-	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 cellular component organization membrane fusion 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 cellular component organization membrane fusion fusion of virus membrane with host plasma membrane cellular process cellular component organization or biogenesis symbiont entry into host cell symbiont entry into host endocytosis involved in viral entry into host cell	cellular anatomical structure membrane 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 cellular anatomical structure membrane 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 host cell plasma membrane
A [auth B], C	Dipeptidase 1	beta-lactamase activity hydrolase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides catalytic activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds binding lipid binding phospholipid binding GPI anchor binding glycolipid binding carbohydrate derivative binding phosphatidylinositol binding cation binding transition metal ion binding beta-lactamase activity hydrolase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides catalytic activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds binding lipid binding phospholipid binding GPI anchor binding glycolipid binding carbohydrate derivative binding phosphatidylinositol binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding peptidase activity catalytic activity, acting on a protein exopeptidase activity dipeptidase activity identical protein binding protein binding metallodipeptidase activity metallopeptidase activity metalloexopeptidase activity modified amino acid binding	cellular response to stimulus cellular response to metal ion cellular response to chemical stimulus response to stimulus response to metal ion response to chemical cellular response to calcium ion cellular process response to calcium ion sulfur compound catabolic process glutathione metabolic process glutathione catabolic process catabolic process modified amino acid metabolic process cellular response to stimulus cellular response to metal ion cellular response to chemical stimulus response to stimulus response to metal ion response to chemical cellular response to calcium ion cellular process response to calcium ion sulfur compound catabolic process glutathione metabolic process glutathione catabolic process catabolic process modified amino acid metabolic process metabolic process sulfur compound metabolic process amide metabolic process modified amino acid catabolic process antibiotic metabolic process homocysteine metabolic process oxoacid metabolic process sulfur amino acid metabolic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process organic acid metabolic process alpha-amino acid metabolic process non-proteinogenic amino acid metabolic process small molecule metabolic process negative regulation of locomotion regulation of biological process regulation of cell motility regulation of cellular process biological regulation negative regulation of biological process regulation of locomotion negative regulation of cellular process regulation of cell migration negative regulation of cell motility cell migration cell motility negative regulation of cell migration locomotion icosanoid metabolic process icosanoid catabolic process leukotriene catabolic process organic acid catabolic process fatty acid derivative catabolic process carboxylic acid catabolic process lipid catabolic process leukotriene metabolic process leukotriene D4 catabolic process fatty acid derivative metabolic process small molecule catabolic process lipid metabolic process cellular response to nitrogen compound response to endogenous stimulus response to peptide hormone response to oxygen-containing compound cellular response to peptide hormone stimulus response to nitrogen compound cellular response to oxygen-containing compound cellular response to endogenous stimulus response to hormone response to insulin cellular response to insulin stimulus cellular response to hormone stimulus proteolysis protein metabolic process macromolecule metabolic process cellular response to nitric oxide response to nitric oxide cellular response to reactive nitrogen species	cellular anatomical structure apical part of cell cell periphery membrane plasma membrane plasma membrane region apical plasma membrane plasma membrane bounded cell projection cell projection actin-based cell projection microvillus microvillus membrane cell projection membrane membrane-bounded organelle cellular anatomical structure apical part of cell cell periphery membrane plasma membrane plasma membrane region apical plasma membrane plasma membrane bounded cell projection cell projection actin-based cell projection microvillus microvillus membrane cell projection membrane membrane-bounded organelle intracellular anatomical structure organelle subcompartment intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum membrane side of membrane extracellular region extracellular space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth A], D	IPR018548	Spike (S) protein S1 subunit, receptor-binding domain, betacoronavirus	Domain
B [auth A], D	IPR032500	Spike glycoprotein S1, N-terminal domain, betacoronavirus-like	Domain
B [auth A], D	IPR042578	Spike glycoprotein, betacoronavirus	Family
B [auth A], D	IPR036326	Spike S1 subunit, receptor binding domain superfamily, betacoronavirus	Homologous Superfamily
B [auth A], D	IPR043002	Spike glycoprotein, N-terminal domain superfamily	Homologous Superfamily
B [auth A], D	IPR044339	Spike (S) protein S1 subunit, N-terminal domain, murine hepatitis virus-like	Domain
B [auth A], D	IPR044874	Spike glycoprotein S2, coronavirus, heptad repeat 2	Domain
B [auth A], D	IPR043614	Spike glycoprotein S2, coronavirus, C-terminal	Domain
B [auth A], D	IPR044873	Spike glycoprotein S2, coronavirus, heptad repeat 1	Domain
B [auth A], D	IPR043473	Spike glycoprotein S2 superfamily, coronavirus	Homologous Superfamily
B [auth A], D	IPR043607	Coronavirus spike glycoprotein S1, C-terminal	Domain
B [auth A], D	IPR002552	Spike glycoprotein S2, coronavirus	Domain
B [auth A], D	IPR044380	Spike (S) protein S1 subunit, receptor-binding domain, HEV	Domain
A [auth B], C	IPR000180	Membrane dipeptidase, active site	Active Site
A [auth B], C	IPR032466	Metal-dependent hydrolase	Homologous Superfamily
A [auth B], C	IPR008257	Peptidase M19	Family

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.