4MBY

Structure of B-Lymphotropic Polyomavirus VP1 in complex with 3'-sialyllactose

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-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d4mbya1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(B-lymphotropic polyomavirus ) [TaxId: 332091 ],	SCOPe (2.08)
A	d4mbya2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(B-lymphotropic polyomavirus ) [TaxId: 332091 ],	SCOPe (2.08)
C	d4mbyc1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(B-lymphotropic polyomavirus ) [TaxId: 332091 ],	SCOPe (2.08)
C	d4mbyc2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(B-lymphotropic polyomavirus ) [TaxId: 332091 ],	SCOPe (2.08)
D	d4mbyd1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(B-lymphotropic polyomavirus ) [TaxId: 332091 ],	SCOPe (2.08)
D	d4mbyd2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(B-lymphotropic polyomavirus ) [TaxId: 332091 ],	SCOPe (2.08)
E	d4mbye1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(B-lymphotropic polyomavirus ) [TaxId: 332091 ],	SCOPe (2.08)
E	d4mbye2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(B-lymphotropic polyomavirus ) [TaxId: 332091 ],	SCOPe (2.08)
F	d4mbyf1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(B-lymphotropic polyomavirus ) [TaxId: 332091 ],	SCOPe (2.08)
F	d4mbyf2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(B-lymphotropic polyomavirus ) [TaxId: 332091 ],	SCOPe (2.08)
G	d4mbyg1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(B-lymphotropic polyomavirus ) [TaxId: 332091 ],	SCOPe (2.08)
G	d4mbyg2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(B-lymphotropic polyomavirus ) [TaxId: 332091 ],	SCOPe (2.08)
H	d4mbyh1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(B-lymphotropic polyomavirus ) [TaxId: 332091 ],	SCOPe (2.08)
H	d4mbyh2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(B-lymphotropic polyomavirus ) [TaxId: 332091 ],	SCOPe (2.08)
I	d4mbyi1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(B-lymphotropic polyomavirus ) [TaxId: 332091 ],	SCOPe (2.08)
I	d4mbyi2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(B-lymphotropic polyomavirus ) [TaxId: 332091 ],	SCOPe (2.08)
J	d4mbyj1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(B-lymphotropic polyomavirus ) [TaxId: 332091 ],	SCOPe (2.08)
J	d4mbyj2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(B-lymphotropic polyomavirus ) [TaxId: 332091 ],	SCOPe (2.08)
B	d4mbyb1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(B-lymphotropic polyomavirus ) [TaxId: 332091 ],	SCOPe (2.08)
B	d4mbyb2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(B-lymphotropic polyomavirus ) [TaxId: 332091 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Group I dsDNA viruses	8081597	3000939	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Group I dsDNA viruses	8081597	3000939	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Group I dsDNA viruses	8081597	3000939	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Group I dsDNA viruses	8081597	3000939	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Group I dsDNA viruses	8081597	3000939	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Group I dsDNA viruses	8081597	3000939	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Group I dsDNA viruses	8081597	3000939	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Group I dsDNA viruses	8081597	3000939	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Group I dsDNA viruses	8081597	3000939	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Group I dsDNA viruses	8081597	3000939	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)
A	Polyoma_coat	e4mbyA1	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: Polyoma_coat	ECOD (1.6)
C	Polyoma_coat	e4mbyC1	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: Polyoma_coat	ECOD (1.6)
D	Polyoma_coat	e4mbyD1	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: Polyoma_coat	ECOD (1.6)
E	Polyoma_coat	e4mbyE1	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: Polyoma_coat	ECOD (1.6)
F	Polyoma_coat	e4mbyF1	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: Polyoma_coat	ECOD (1.6)
G	Polyoma_coat	e4mbyG1	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: Polyoma_coat	ECOD (1.6)
H	Polyoma_coat	e4mbyH1	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: Polyoma_coat	ECOD (1.6)
I	Polyoma_coat	e4mbyI1	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: Polyoma_coat	ECOD (1.6)
J	Polyoma_coat	e4mbyJ1	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: Polyoma_coat	ECOD (1.6)
B	Polyoma_coat	e4mbyB1	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: Polyoma_coat	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
C	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
D	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
E	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
F	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
G	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
H	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
I	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
J	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
B	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)

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, I, J	PF00718	Polyomavirus coat protein (Polyoma_coat)	Polyomavirus coat protein	-	Domain

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, I, J	Major Capsid Protein VP1	structural molecule activity	virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell viral process viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction import into cell transport establishment of localization vesicle-mediated transport localization symbiont entry into host cell virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell viral process viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction import into cell transport establishment of localization vesicle-mediated transport localization symbiont entry into host cell symbiont entry into host cellular process endocytosis involved in viral entry into host cell endocytosis transport of virus	viral capsid icosahedral viral capsid T=7 icosahedral viral capsid virion component host intracellular membrane-bounded organelle host cellular component host intracellular part host cell part host intracellular region cellular anatomical entity host cell nucleus host intracellular organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR011222	Double-stranded DNA virus, group I, capsid	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR000662	Capsid protein VP1,Polyomavirus	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR036931	Polyomavirus capsid protein VP1 superfamily	Homologous Superfamily