3DA0 | pdb_00003da0

Crystal structure of a cleaved form of a chimeric receptor binding protein from Lactococcal phages subspecies TP901-1 and p2

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	d3da0a2	All beta proteins	Virus attachment protein globular domain	Virus attachment protein globular domain	automated matches	automated matches	(Lactococcus phage TP901-1 ) [TaxId: 35345 ], (Lactococcus virus P2 ) [TaxId: 254252 ],	SCOPe (2.08)
A	d3da0a1	All beta proteins	Triple-stranded beta-helix	Phage fibre proteins	automated matches	automated matches	(Lactococcus phage TP901-1 ) [TaxId: 35345 ], (Lactococcus virus P2 ) [TaxId: 254252 ],	SCOPe (2.08)
B	d3da0b2	All beta proteins	Virus attachment protein globular domain	Virus attachment protein globular domain	automated matches	automated matches	(Lactococcus phage TP901-1 ) [TaxId: 35345 ], (Lactococcus virus P2 ) [TaxId: 254252 ],	SCOPe (2.08)
B	d3da0b1	All beta proteins	Triple-stranded beta-helix	Phage fibre proteins	automated matches	automated matches	(Lactococcus phage TP901-1 ) [TaxId: 35345 ], (Lactococcus virus P2 ) [TaxId: 254252 ],	SCOPe (2.08)
B	d3da0b3	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Lactococcus phage TP901-1 ) [TaxId: 35345 ], (Lactococcus virus P2 ) [TaxId: 254252 ],	SCOPe (2.08)
C	d3da0c2	All beta proteins	Virus attachment protein globular domain	Virus attachment protein globular domain	automated matches	automated matches	(Lactococcus phage TP901-1 ) [TaxId: 35345 ], (Lactococcus virus P2 ) [TaxId: 254252 ],	SCOPe (2.08)
C	d3da0c1	All beta proteins	Triple-stranded beta-helix	Phage fibre proteins	automated matches	automated matches	(Lactococcus phage TP901-1 ) [TaxId: 35345 ], (Lactococcus virus P2 ) [TaxId: 254252 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Virus attachment protein globular domain	8036189	3001376	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Virus attachment protein globular domain	8036189	3001376	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Virus attachment protein globular domain	8036189	3001376	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	Caudo_bapla_RBP_3rd	e3da0A1	A: beta sandwiches	X: Domain in virus attachment proteins (From Topology)	H: Domain in virus attachment proteins (From Topology)	T: Domain in virus attachment proteins	F: Caudo_bapla_RBP_3rd	ECOD (1.6)
B	Caudo_bapla_RBP_3rd	e3da0B1	A: beta sandwiches	X: Domain in virus attachment proteins (From Topology)	H: Domain in virus attachment proteins (From Topology)	T: Domain in virus attachment proteins	F: Caudo_bapla_RBP_3rd	ECOD (1.6)
C	Caudo_bapla_RBP_3rd	e3da0C1	A: beta sandwiches	X: Domain in virus attachment proteins (From Topology)	H: Domain in virus attachment proteins (From Topology)	T: Domain in virus attachment proteins	F: Caudo_bapla_RBP_3rd	ECOD (1.6)
C	EUF07875	e3da0C2	A: beta duplicates or obligate multimers	X: Phage tail fiber protein trimerization domain (From Topology)	H: Phage tail fiber protein trimerization domain (From Topology)	T: Phage tail fiber protein trimerization domain	F: EUF07875	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.40.1830	Mainly Beta	Sandwich	Immunoglobulin-like	Phage tail base-plate Siphoviridae RBP, head domain	CATH (4.3.0)
B	2.60.40.1830	Mainly Beta	Sandwich	Immunoglobulin-like	Phage tail base-plate Siphoviridae RBP, head domain	CATH (4.3.0)
C	2.60.40.1830	Mainly Beta	Sandwich	Immunoglobulin-like	Phage tail base-plate Siphoviridae RBP, head domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF18338	Lower baseplate protein N-terminal domain (BppL_N)	Lower baseplate protein N-terminal domain	-	Repeat
A, B, C	PF08931	Lactophage receptor-binding protein C-terminal head domain (Caudo_bapla_RBP)	Lactophage receptor-binding protein C-terminal head domain	Caudo_bapla_RBP is a family of proteins expressed from ORF18 of the Lactococcus P2-like phage. This is one of three protein domains, shoulders, neck, and head, that form the phage tail base-plate. In the overall structure this head domain exists as s ...	Caudo_bapla_RBP is a family of proteins expressed from ORF18 of the Lactococcus P2-like phage. This is one of three protein domains, shoulders, neck, and head, that form the phage tail base-plate. In the overall structure this head domain exists as six trimers, and is necessary for specific recognition of the receptors at the host cell surface. Siphoviridae are the P2-like Caudovirales of Lactococcus [1]. This family now includes DUF1914. Family Baseplate, Pfam:PF16774, is the ORF15 or shoulder component of the base-plate complex.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	Cleaved chimeric receptor binding protein from bacteriophages TP901-1 and p2	-	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 cell adhesion cellular process symbiont entry into host cell symbiont entry into host receptor-mediated virion attachment to host cell entry receptor-mediated virion attachment to host cell	virus tail virion component virus tail, baseplate

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR008982	Adenovirus pIV-like, attachment domain	Homologous Superfamily
A, B, C	IPR015027	Receptor-binding protein of phage tail base-plate Siphoviridae, head	Domain
A, B, C	IPR040956	Lower baseplate protein, N-terminal	Domain
A, B, C	IPR048779	Receptor binding protein, neck domain	Domain
A, B, C	IPR048780	Receptor-binding protein, N-terminal shoulder domain	Domain
A, B, C	IPR008982	Adenovirus pIV-like, attachment domain	Homologous Superfamily
A, B, C	IPR015027	Receptor-binding protein of phage tail base-plate Siphoviridae, head	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.