7DYD | pdb_00007dyd

Crystal structure of MERS-CoV N-NTD complexed with ligand P4-2

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	SARS coronavirus nucleoprotein RNA-binding domain-like	8101988	3000498	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	SARS coronavirus nucleoprotein RNA-binding domain-like	8101988	3000498	SCOP2B (2022-06-29)
B	SCOP2 Family	SARS coronavirus nucleoprotein RNA-binding domain-like	8106049	4001881	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	SARS coronavirus nucleoprotein RNA-binding domain-like	8106050	3000498	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	SARS coronavirus nucleoprotein RNA-binding domain-like	8101988	3000498	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	SARS coronavirus nucleoprotein RNA-binding domain-like	8101988	3000498	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	DUF1870	e7dydD1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: DUF1870	ECOD (v294.1)
C	DUF1870	e7dydC1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: DUF1870	ECOD (v294.1)
B	DUF1870	e7dydB1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: DUF1870	ECOD (v294.1)
A	Peptidase_M4,Peptidase_M4_C	e7dydA1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Peptidase_M4,Peptidase_M4_C	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF00937	Coronavirus nucleocapsid (CoV_nucleocap)	Coronavirus nucleocapsid	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Nucleoprotein	RNA binding binding nucleic acid binding	virion assembly viral RNA genome packaging viral process viral life cycle viral genome packaging multicellular organismal process regulation of cellular process negative regulation of biological process negative regulation of type I interferon production cytokine production negative regulation of cellular process regulation of cytokine production regulation of multicellular organismal process regulation of interferon-beta production virion assembly viral RNA genome packaging viral process viral life cycle viral genome packaging multicellular organismal process regulation of cellular process negative regulation of biological process negative regulation of type I interferon production cytokine production negative regulation of cellular process regulation of cytokine production regulation of multicellular organismal process regulation of interferon-beta production interferon-beta production negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process type I interferon production negative regulation of metabolic process biological regulation negative regulation of cytokine production regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of interferon-beta production metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process negative regulation of multicellular organismal process regulation of metabolic process regulation of type I interferon production	host intracellular membrane-bounded organelle host cellular component host intracellular part other organism part host cell cytoplasm part host intracellular organelle host cell endoplasmic reticulum-Golgi intermediate compartment cellular anatomical structure host cell cytoplasm host cell part host intracellular region host cell Golgi apparatus viral capsid virion component host intracellular membrane-bounded organelle host cellular component host intracellular part other organism part host cell cytoplasm part host intracellular organelle host cell endoplasmic reticulum-Golgi intermediate compartment cellular anatomical structure host cell cytoplasm host cell part host intracellular region host cell Golgi apparatus viral capsid virion component protein-containing complex ribonucleoprotein complex viral nucleocapsid

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR001218	Nucleocapsid protein, coronavirus	Family
A, B, C, D	IPR044344	Nucleocapsid (N) protein, C-terminal domain, coronavirus	Domain
A, B, C, D	IPR037195	Nucleocapsid protein, N-terminal	Homologous Superfamily
A, B, C, D	IPR037179	Nucleocapsid protein, C-terminal	Homologous Superfamily
A, B, C, D	IPR043505	Nucleocapsid protein, betacoronavirus	Family
A, B, C, D	IPR044345	Nucleocapsid (N) protein, N-terminal domain, coronavirus	Domain

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.