9K9N | pdb_00009k9n

Cryo-EM structure of MjHKU4r-CoV-1 receptor-binding domain complexed with human CD26

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	SARS coronavirus receptor-binding domain-like	8092540	3001706	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	alpha/beta-Hydrolases	8039750	3000102	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	DPP6 N-terminal domain-like	8039749	3001705	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	alpha/beta-Hydrolases	8039750	3000102	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	DPP6 N-terminal domain-like	8039749	3001705	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C	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, B	PF00930	Dipeptidyl peptidase IV (DPP IV) N-terminal region (DPPIV_N)	Dipeptidyl peptidase IV (DPP IV) N-terminal region	-	Repeat
A, B	PF00326	Prolyl oligopeptidase family (Peptidase_S9)	Prolyl oligopeptidase family		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C	Spike protein S1	-	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, B	Dipeptidyl peptidase 4 soluble form	protein binding binding virus receptor activity exogenous protein binding peptidase activity catalytic activity, acting on a protein dipeptidyl-peptidase activity hydrolase activity exopeptidase activity catalytic activity signaling receptor binding enzyme binding protease binding serine hydrolase activity protein binding binding virus receptor activity exogenous protein binding peptidase activity catalytic activity, acting on a protein dipeptidyl-peptidase activity hydrolase activity exopeptidase activity catalytic activity signaling receptor binding enzyme binding protease binding serine hydrolase activity serine-type peptidase activity serine-type endopeptidase activity endopeptidase activity identical protein binding protein homodimerization activity protein dimerization activity molecular function activator activity molecular function regulator activity signaling receptor regulator activity chemorepellent activity receptor ligand activity signaling receptor activator activity aminopeptidase activity	membrane organization cellular component organization membrane fusion cellular process cellular component organization or biogenesis import into cell receptor-mediated endocytosis of virus by host cell biological process involved in interspecies interaction between organisms transport viral life cycle establishment of localization biological process involved in interaction with host vesicle-mediated transport biological process involved in symbiotic interaction membrane organization cellular component organization membrane fusion cellular process cellular component organization or biogenesis import into cell receptor-mediated endocytosis of virus by host cell biological process involved in interspecies interaction between organisms transport viral life cycle establishment of localization biological process involved in interaction with host vesicle-mediated transport biological process involved in symbiotic interaction localization symbiont entry into host cell viral process symbiont entry into host endocytosis involved in viral entry into host cell receptor-mediated endocytosis endocytosis endothelial cell migration cell migration cell motility cellular response to stimulus negative regulation of locomotion regulation of cell motility regulation of cellular process response to stimulus negative regulation of biological process negative regulation of chemotaxis taxis regulation of immune system process negative regulation of cell migration chemotaxis regulation of biological process regulation of leukocyte chemotaxis regulation of leukocyte migration response to external stimulus neutrophil migration granulocyte migration leukocyte migration negative regulation of leukocyte migration regulation of response to stimulus regulation of locomotion response to chemical negative regulation of response to external stimulus regulation of neutrophil chemotaxis negative regulation of cell motility regulation of neutrophil migration negative regulation of neutrophil chemotaxis negative regulation of leukocyte chemotaxis regulation of response to external stimulus neutrophil chemotaxis regulation of granulocyte chemotaxis negative regulation of cellular process regulation of cell migration myeloid leukocyte migration locomotion cell chemotaxis negative regulation of response to stimulus negative regulation of granulocyte chemotaxis biological regulation regulation of chemotaxis cellular response to chemical stimulus negative regulation of immune system process immune system process granulocyte chemotaxis negative regulation of neutrophil migration leukocyte chemotaxis peptide hormone processing regulation of hormone levels signaling receptor ligand precursor processing primary metabolic process gene expression macromolecule biosynthetic process hormone metabolic process protein maturation biosynthetic process proteolysis protein processing metabolic process amide metabolic process protein metabolic process macromolecule metabolic process regulation of biological quality glucagon processing behavior multicellular organismal process locomotory behavior exploration behavior locomotory exploration behavior cell population proliferation positive regulation of cell population proliferation regulation of cell population proliferation positive regulation of biological process positive regulation of cellular process virion attachment to host cell receptor-mediated virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host T cell activation cell activation lymphocyte activation leukocyte activation cell adhesion response to decreased oxygen levels response to hypoxia response to stress response to oxygen levels response to abiotic stimulus psychomotor behavior motor behavior cell-cell adhesion mediated by integrin regulation of cell adhesion mediated by integrin regulation of cell adhesion regulation of cell-cell adhesion mediated by integrin cell-cell adhesion cell adhesion mediated by integrin regulation of cell-cell adhesion behavioral defense response fear response behavioral fear response defense response multicellular organismal response to stress cellular component disassembly negative regulation of extracellular matrix organization extracellular matrix disassembly regulation of cellular component organization negative regulation of cellular component organization extracellular matrix organization negative regulation of extracellular matrix disassembly regulation of extracellular matrix organization regulation of extracellular matrix disassembly extracellular structure organization external encapsulating structure organization regulation of leukocyte activation regulation of cell activation positive regulation of leukocyte cell-cell adhesion leukocyte cell-cell adhesion positive regulation of cell-cell adhesion positive regulation of lymphocyte activation positive regulation of cell activation positive regulation of leukocyte activation regulation of multicellular organismal process positive regulation of immune system process positive regulation of T cell activation positive regulation of cell adhesion regulation of T cell activation lymphocyte costimulation regulation of leukocyte cell-cell adhesion positive regulation of multicellular organismal process T cell costimulation regulation of lymphocyte activation	cellular anatomical structure anchoring junction cell junction focal adhesion cell-substrate junction cell-cell junction intercellular canaliculus cell projection cell leading edge plasma membrane bounded cell projection lamellipodium membrane cell periphery apical part of cell cellular anatomical structure anchoring junction cell junction focal adhesion cell-substrate junction cell-cell junction intercellular canaliculus cell projection cell leading edge plasma membrane bounded cell projection lamellipodium membrane cell periphery apical part of cell plasma membrane plasma membrane region apical plasma membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle cell surface membrane microdomain membrane raft intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle cytoplasm endocytic vesicle leading edge membrane lamellipodium membrane cell projection membrane vacuolar membrane lytic vacuole vacuole lytic vacuole membrane bounding membrane of organelle lysosomal membrane organelle membrane lysosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C	IPR044378	Spike (S) protein S1 subunit, receptor-binding domain, HKU4-like	Domain
C	IPR018548	Spike (S) protein S1 subunit, receptor-binding domain, betacoronavirus	Domain
C	IPR032500	Spike glycoprotein S1, N-terminal domain, betacoronavirus-like	Domain
C	IPR042578	Spike glycoprotein, betacoronavirus	Family
C	IPR036326	Spike S1 subunit, receptor binding domain superfamily, betacoronavirus	Homologous Superfamily
C	IPR043002	Spike glycoprotein, N-terminal domain superfamily	Homologous Superfamily
C	IPR044874	Spike glycoprotein S2, coronavirus, heptad repeat 2	Domain
C	IPR044337	Spike (S) protein S1 subunit, N-terminal domain, MERS-CoV-like	Domain
C	IPR043614	Spike glycoprotein S2, coronavirus, C-terminal	Domain
C	IPR044873	Spike glycoprotein S2, coronavirus, heptad repeat 1	Domain
C	IPR043473	Spike glycoprotein S2 superfamily, coronavirus	Homologous Superfamily
C	IPR043607	Coronavirus spike glycoprotein S1, C-terminal	Domain
C	IPR002552	Spike glycoprotein S2, coronavirus	Domain
A, B	IPR001375	Peptidase S9, prolyl oligopeptidase, catalytic domain	Domain
A, B	IPR050278	Serine protease S9B/DPPIV	Family
A, B	IPR029058	Alpha/Beta hydrolase fold	Homologous Superfamily
A, B	IPR002471	Peptidase S9, serine active site	Active Site
A, B	IPR002469	Dipeptidylpeptidase IV, N-terminal domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: P27487	rheumatoid arthritis proteinuria type 2 diabetes mellitus malignant glioma Middle East respiratory syndrome ovarian cancer asthma common variable immunodeficiency cystic fibrosis glioblastoma hypoglycemia invasive ductal breast carcinoma lung cancer malignant mesothelioma non-small cell lung carcinoma rheumatoid arthritis proteinuria type 2 diabetes mellitus malignant glioma Middle East respiratory syndrome ovarian cancer asthma common variable immunodeficiency cystic fibrosis glioblastoma hypoglycemia invasive ductal breast carcinoma lung cancer malignant mesothelioma non-small cell lung carcinoma prediabetes syndrome tuberculosis Barrett esophagus coronary artery disease depressive disorder hyperglycemia inborn carbohydrate metabolic disorder kidney disease lung carcinoma Mental Depression obesity disorder cerebrovascular disorder COVID-19 hypertensive disorder interstitial cystitis lung adenocarcinoma

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.