2BPA

ATOMIC STRUCTURE OF SINGLE-STRANDED DNA BACTERIOPHAGE PHIX174 AND ITS FUNCTIONAL IMPLICATIONS

External Resource: Annotation

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

Domain Annotation: SCOP/SCOPe Classification SCOP Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B [auth 1]	d2bpa1_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Microviridae-like VP	Microvirus capsid proteins, capsid protein F	(Sinsheimervirus phiX174 ) [TaxId: 10847 ],	SCOPe (2.08)
C [auth 2]	d2bpa2_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Microviridae-like VP	Microvirus capsid proteins, spike protein G	(Sinsheimervirus phiX174 ) [TaxId: 10847 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B [auth 1]	SCOP2 Family	Microviridae-like VP	8028387	4002271	SCOP2 (2022-06-29)
B [auth 1]	SCOP2 Superfamily	ssDNA viruses	8040766	3000931	SCOP2 (2022-06-29)
D [auth 3]	SCOP2 Family	phiX174 DNA-binding protein J-like	8046366	4005044	SCOP2 (2022-06-29)
D [auth 3]	SCOP2 Superfamily	phiX174 DNA-binding protein J-like	8053968	3002257	SCOP2 (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 [auth 1]	PF02305	e2bpa11	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: PF02305	ECOD (1.6)
C [auth 2]	PF02306	e2bpa21	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: PF02306	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B [auth 1]	2.60.169.10	Mainly Beta	Sandwich	Bacteriophage G4 Capsid Proteins Gpf, Gpg, Gpj, subunit 1	Microviridae F protein	CATH (4.3.0)
C [auth 2]	2.60.120.20	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth 1]	PF02305	Capsid protein (F protein) (Phage_F)	Capsid protein (F protein)	This is a family of proteins from single-stranded DNA bacteriophages. Protein F is the major capsid component, sixty copies of which are found in the virion.	Domain
C [auth 2]	PF02306	Major spike protein (G protein) (Phage_G)	Major spike protein (G protein)	This is a family of proteins from single-stranded DNA bacteriophages. Five G proteins, each a tight beta barrel, from twelve surface spikes.	Domain
D [auth 3]	PF04726	Microvirus J protein (Microvir_J)	Microvirus J protein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	DNA (5'-D(APAPAPAP*C)-3')	-	-	-
B [auth 1]	PROTEIN (SUBUNIT OF BACTERIOPHAGE PHIX174)	structural molecule activity	biological process involved in interspecies interaction between organisms symbiont entry into host cell viral process symbiont entry into host viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction	viral capsid icosahedral viral capsid virion component T=1 icosahedral viral capsid
C [auth 2]	PROTEIN (SUBUNIT OF BACTERIOPHAGE PHIX174)	-	biological process involved in interspecies interaction between organisms symbiont entry into host cell viral process symbiont entry into host viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host modulation by symbiont of host process modulation by virus of host process modulation of process of another organism	viral capsid virion component host cellular component host intracellular part host cell cytoplasm host cell part host intracellular region cellular anatomical entity
D [auth 3]	PROTEIN (SUBUNIT OF BACTERIOPHAGE PHIX174)	DNA binding binding organic cyclic compound binding nucleic acid binding	-	viral capsid virion component host cellular component host intracellular part host cell cytoplasm host cell part host intracellular region cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth 1]	IPR016184	Capsid/spike protein, ssDNA virus	Homologous Superfamily
B [auth 1]	IPR003514	Microviridae F protein	Family
B [auth 1]	IPR037002	Microviridae F protein superfamily	Homologous Superfamily
C [auth 2]	IPR029053	Viral coat protein subunit	Homologous Superfamily
C [auth 2]	IPR016184	Capsid/spike protein, ssDNA virus	Homologous Superfamily
C [auth 2]	IPR003515	Major spike protein G	Family
D [auth 3]	IPR006815	Microvirus J protein-like	Family

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.