2CJR

Crystal structure of oligomerization domain of SARS coronavirus nucleocapsid protein.

External Resource: Annotation

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

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d2cjrb_	Alpha and beta proteins (a+b)	Nucleocapsid protein dimerization domain	Nucleocapsid protein dimerization domain	Coronavirus nucleocapsid protein	automated matches	(SARS coronavirus TW1 ) [TaxId: 229993 ],	SCOPe (2.08)
A	d2cjra1	Alpha and beta proteins (a+b)	Nucleocapsid protein dimerization domain	Nucleocapsid protein dimerization domain	Coronavirus nucleocapsid protein	Coronavirus nucleocapsid protein	(SARS coronavirus TW1 ) [TaxId: 229993 ],	SCOPe (2.08)
C	d2cjrc_	Alpha and beta proteins (a+b)	Nucleocapsid protein dimerization domain	Nucleocapsid protein dimerization domain	Coronavirus nucleocapsid protein	automated matches	(SARS coronavirus TW1 ) [TaxId: 229993 ],	SCOPe (2.08)
D	d2cjrd_	Alpha and beta proteins (a+b)	Nucleocapsid protein dimerization domain	Nucleocapsid protein dimerization domain	Coronavirus nucleocapsid protein	automated matches	(SARS coronavirus TW1 ) [TaxId: 229993 ],	SCOPe (2.08)
E	d2cjre_	Alpha and beta proteins (a+b)	Nucleocapsid protein dimerization domain	Nucleocapsid protein dimerization domain	Coronavirus nucleocapsid protein	automated matches	(SARS coronavirus TW1 ) [TaxId: 229993 ],	SCOPe (2.08)
F	d2cjrf_	Alpha and beta proteins (a+b)	Nucleocapsid protein dimerization domain	Nucleocapsid protein dimerization domain	Coronavirus nucleocapsid protein	automated matches	(SARS coronavirus TW1 ) [TaxId: 229993 ],	SCOPe (2.08)
G	d2cjrg_	Alpha and beta proteins (a+b)	Nucleocapsid protein dimerization domain	Nucleocapsid protein dimerization domain	Coronavirus nucleocapsid protein	automated matches	(SARS coronavirus TW1 ) [TaxId: 229993 ],	SCOPe (2.08)
H	d2cjrh_	Alpha and beta proteins (a+b)	Nucleocapsid protein dimerization domain	Nucleocapsid protein dimerization domain	Coronavirus nucleocapsid protein	automated matches	(SARS coronavirus TW1 ) [TaxId: 229993 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Nucleocapsid protein dimerization domain	8041902	3001606	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Nucleocapsid protein dimerization domain	8041902	3001606	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Nucleocapsid protein dimerization domain	8041902	3001606	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Nucleocapsid protein dimerization domain	8041902	3001606	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Nucleocapsid protein dimerization domain	8041902	3001606	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Nucleocapsid protein dimerization domain	8041902	3001606	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Nucleocapsid protein dimerization domain	8041902	3001606	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Nucleocapsid protein dimerization domain	8041902	3001606	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)
B	Corona_nucleoca_2nd	e2cjrB1	A: a+b duplicates or obligate multimers	X: Arterivirus nucleocapsid protein (From Topology)	H: Arterivirus nucleocapsid protein (From Topology)	T: Arterivirus nucleocapsid protein	F: Corona_nucleoca_2nd	ECOD (1.6)
A	Corona_nucleoca_2nd	e2cjrA1	A: a+b duplicates or obligate multimers	X: Arterivirus nucleocapsid protein (From Topology)	H: Arterivirus nucleocapsid protein (From Topology)	T: Arterivirus nucleocapsid protein	F: Corona_nucleoca_2nd	ECOD (1.6)
C	Corona_nucleoca_2nd	e2cjrC1	A: a+b duplicates or obligate multimers	X: Arterivirus nucleocapsid protein (From Topology)	H: Arterivirus nucleocapsid protein (From Topology)	T: Arterivirus nucleocapsid protein	F: Corona_nucleoca_2nd	ECOD (1.6)
D	Corona_nucleoca_2nd	e2cjrD1	A: a+b duplicates or obligate multimers	X: Arterivirus nucleocapsid protein (From Topology)	H: Arterivirus nucleocapsid protein (From Topology)	T: Arterivirus nucleocapsid protein	F: Corona_nucleoca_2nd	ECOD (1.6)
E	Corona_nucleoca_2nd	e2cjrE1	A: a+b duplicates or obligate multimers	X: Arterivirus nucleocapsid protein (From Topology)	H: Arterivirus nucleocapsid protein (From Topology)	T: Arterivirus nucleocapsid protein	F: Corona_nucleoca_2nd	ECOD (1.6)
F	Corona_nucleoca_2nd	e2cjrF1	A: a+b duplicates or obligate multimers	X: Arterivirus nucleocapsid protein (From Topology)	H: Arterivirus nucleocapsid protein (From Topology)	T: Arterivirus nucleocapsid protein	F: Corona_nucleoca_2nd	ECOD (1.6)
G	Corona_nucleoca_2nd	e2cjrG1	A: a+b duplicates or obligate multimers	X: Arterivirus nucleocapsid protein (From Topology)	H: Arterivirus nucleocapsid protein (From Topology)	T: Arterivirus nucleocapsid protein	F: Corona_nucleoca_2nd	ECOD (1.6)
H	Corona_nucleoca_2nd	e2cjrH1	A: a+b duplicates or obligate multimers	X: Arterivirus nucleocapsid protein (From Topology)	H: Arterivirus nucleocapsid protein (From Topology)	T: Arterivirus nucleocapsid protein	F: Corona_nucleoca_2nd	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H	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, E A, B, C, D, E, F, G, H	NUCLEOCAPSID PROTEIN	DNA binding binding organic cyclic compound binding nucleic acid binding molecular adaptor activity RNA binding identical protein binding protein binding	virion assembly viral RNA genome packaging viral process viral life cycle viral genome packaging multicellular organismal process regulation of cellular process cellular biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process negative regulation of type I interferon production organic substance metabolic process cytokine production organic substance biosynthetic process virion assembly viral RNA genome packaging viral process viral life cycle viral genome packaging multicellular organismal process regulation of cellular process cellular biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process negative regulation of type I interferon production organic substance metabolic process cytokine production organic substance biosynthetic process 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 cellular metabolic process negative regulation of metabolic process biological regulation negative regulation of cytokine production regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process negative regulation of cellular biosynthetic process regulation of cellular 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 host cell endoplasmic reticulum-Golgi intermediate compartment host cell cytoplasm host cell part host intracellular region cellular anatomical entity host cell cytoplasm part host intracellular organelle host cell Golgi apparatus cell periphery plasma membrane membrane host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum-Golgi intermediate compartment host cell cytoplasm host cell part host intracellular region cellular anatomical entity host cell cytoplasm part host intracellular organelle host cell Golgi apparatus cell periphery plasma membrane membrane viral capsid virion component host cell nucleus protein-containing complex ribonucleoprotein complex viral nucleocapsid host cell perinuclear region of cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

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

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.