5WMF | pdb_00005wmf

Crystal structure of the Hexameric Ring of Epstein-Barr Virus Nuclear Antigen-1, EBNA1

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
F	d5wmff_	Alpha and beta proteins (a+b)	Ferredoxin-like	Viral DNA-binding domain	Viral DNA-binding domain	Epstein barr virus nuclear antigen-1 (ebna1)	HHV-4 (Human herpesvirus 4 strain B95-8 ) [TaxId: 10377 ],	SCOPe (2.08)
E	d5wmfe_	Alpha and beta proteins (a+b)	Ferredoxin-like	Viral DNA-binding domain	Viral DNA-binding domain	Epstein barr virus nuclear antigen-1 (ebna1)	HHV-4 (Human herpesvirus 4 strain B95-8 ) [TaxId: 10377 ],	SCOPe (2.08)
D	d5wmfd_	Alpha and beta proteins (a+b)	Ferredoxin-like	Viral DNA-binding domain	Viral DNA-binding domain	Epstein barr virus nuclear antigen-1 (ebna1)	HHV-4 (Human herpesvirus 4 strain B95-8 ) [TaxId: 10377 ],	SCOPe (2.08)
C	d5wmfc_	Alpha and beta proteins (a+b)	Ferredoxin-like	Viral DNA-binding domain	Viral DNA-binding domain	Epstein barr virus nuclear antigen-1 (ebna1)	HHV-4 (Human herpesvirus 4 strain B95-8 ) [TaxId: 10377 ],	SCOPe (2.08)
B	d5wmfb_	Alpha and beta proteins (a+b)	Ferredoxin-like	Viral DNA-binding domain	Viral DNA-binding domain	Epstein barr virus nuclear antigen-1 (ebna1)	HHV-4 (Human herpesvirus 4 strain B95-8 ) [TaxId: 10377 ],	SCOPe (2.08)
A	d5wmfa_	Alpha and beta proteins (a+b)	Ferredoxin-like	Viral DNA-binding domain	Viral DNA-binding domain	Epstein barr virus nuclear antigen-1 (ebna1)	HHV-4 (Human herpesvirus 4 strain B95-8 ) [TaxId: 10377 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	Viral DNA-binding domain	8035383	3001239	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Viral DNA-binding domain	8035383	3001239	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Viral DNA-binding domain	8035383	3001239	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Viral DNA-binding domain	8035383	3001239	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Viral DNA-binding domain	8035383	3001239	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Viral DNA-binding domain	8035383	3001239	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)
F	Nrd1-Seb1_dom2	e5wmfF1	A: a/b three-layered sandwiches	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v294.1)
E	Nrd1-Seb1_dom2	e5wmfE1	A: a/b three-layered sandwiches	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v294.1)
D	Nrd1-Seb1_dom2	e5wmfD1	A: a/b three-layered sandwiches	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v294.1)
C	Nrd1-Seb1_dom2	e5wmfC1	A: a/b three-layered sandwiches	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v294.1)
B	Nrd1-Seb1_dom2	e5wmfB1	A: a/b three-layered sandwiches	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v294.1)
A	Nrd1-Seb1_dom2	e5wmfA1	A: a/b three-layered sandwiches	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	3.30.70.390	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Epstein Barr virus nuclear antigen-1, DNA-binding domain	CATH (4.3.0)
E	3.30.70.390	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Epstein Barr virus nuclear antigen-1, DNA-binding domain	CATH (4.3.0)
D	3.30.70.390	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Epstein Barr virus nuclear antigen-1, DNA-binding domain	CATH (4.3.0)
C	3.30.70.390	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Epstein Barr virus nuclear antigen-1, DNA-binding domain	CATH (4.3.0)
B	3.30.70.390	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Epstein Barr virus nuclear antigen-1, DNA-binding domain	CATH (4.3.0)
A	3.30.70.390	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Epstein Barr virus nuclear antigen-1, DNA-binding domain	CATH (4.3.0)

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	Epstein-Barr nuclear antigen 1	DNA binding binding nucleic acid binding hydrolase activity catalytic activity endonuclease activity nuclease activity catalytic activity, acting on a nucleic acid transcription regulator activity DNA-binding transcription factor activity enzyme-substrate adaptor activity protein-macromolecule adaptor activity molecular adaptor activity	symbiont-mediated disruption of host anatomical structure biological process involved in interspecies interaction between organisms symbiont-mediated disruption of host cell PML body disruption of anatomical structure in another organism symbiont-mediated disruption of host cellular anatomical structure viral latency viral process regulation of cellular process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process symbiont-mediated disruption of host anatomical structure biological process involved in interspecies interaction between organisms symbiont-mediated disruption of host cell PML body disruption of anatomical structure in another organism symbiont-mediated disruption of host cellular anatomical structure viral latency viral process regulation of cellular process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process cellular process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process symbiont-mediated suppression of host signal transduction pathway symbiont-mediated perturbation of host NF-kappaB cascade symbiont-mediated perturbation of host cellular process symbiont-mediated perturbation of host process symbiont-mediated perturbation of host signal transduction pathway symbiont-mediated suppression of host NF-kappaB cascade modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction DNA metabolic process DNA replication regulation of DNA replication regulation of DNA metabolic process	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell nucleus other organism part host cell nuclear part host cell PML body host intracellular organelle cellular anatomical structure host cell part host intracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR004186	Epstein Barr virus nuclear antigen-1, DNA-binding	Domain
A, B, C, D, E A, B, C, D, E, F	IPR035975	E2/EBNA1, C-terminal	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR037007	Epstein Barr virus nuclear antigen-1, DNA-binding domain superfamily	Homologous Superfamily

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.