1ZRU

structure of the lactophage p2 receptor binding protein in complex with glycerol

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	d1zrua1	All beta proteins	Virus attachment protein globular domain	Virus attachment protein globular domain	Lactophage receptor-binding protein head domain	receptor binding protein, rbp, C-terminal domain	(Lactococcus virus P2 ) [TaxId: 254252 ],	SCOPe (2.08)
A	d1zrua2	All beta proteins	Triple-stranded beta-helix	Phage fibre proteins	Lactophage receptor-binding protein domain	Receptor binding protein, rbp, middle domain	(Lactococcus virus P2 ) [TaxId: 254252 ],	SCOPe (2.08)
A	d1zrua3	All beta proteins	Pseudo beta-prism I	Bacteriophage trimeric proteins domain	Lactophage receptor-binding protein N-terminal domain	Receptor binding protein, rbp, N-terminal domain	(Lactococcus virus P2 ) [TaxId: 254252 ],	SCOPe (2.08)
B	d1zrub1	All beta proteins	Virus attachment protein globular domain	Virus attachment protein globular domain	Lactophage receptor-binding protein head domain	receptor binding protein, rbp, C-terminal domain	(Lactococcus virus P2 ) [TaxId: 254252 ],	SCOPe (2.08)
B	d1zrub2	All beta proteins	Triple-stranded beta-helix	Phage fibre proteins	Lactophage receptor-binding protein domain	Receptor binding protein, rbp, middle domain	(Lactococcus virus P2 ) [TaxId: 254252 ],	SCOPe (2.08)
B	d1zrub3	All beta proteins	Pseudo beta-prism I	Bacteriophage trimeric proteins domain	Lactophage receptor-binding protein N-terminal domain	Receptor binding protein, rbp, N-terminal domain	(Lactococcus virus P2 ) [TaxId: 254252 ],	SCOPe (2.08)
C	d1zruc1	All beta proteins	Virus attachment protein globular domain	Virus attachment protein globular domain	Lactophage receptor-binding protein head domain	receptor binding protein, rbp, C-terminal domain	(Lactococcus virus P2 ) [TaxId: 254252 ],	SCOPe (2.08)
C	d1zruc2	All beta proteins	Triple-stranded beta-helix	Phage fibre proteins	Lactophage receptor-binding protein domain	Receptor binding protein, rbp, middle domain	(Lactococcus virus P2 ) [TaxId: 254252 ],	SCOPe (2.08)
C	d1zruc3	All beta proteins	Pseudo beta-prism I	Bacteriophage trimeric proteins domain	Lactophage receptor-binding protein N-terminal domain	Receptor binding protein, rbp, N-terminal domain	(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	Bacteriophage trimeric proteins domain	8036194	3000915	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Phage fibre proteins	8036192	3000351	SCOP2B (2022-06-29)
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)
B	SCOP2B Superfamily	Phage fibre proteins	8036192	3000351	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Bacteriophage trimeric proteins domain	8036194	3000915	SCOP2B (2022-06-29)
C	SCOP2 Family	Lactophage receptor-binding protein head domain	8023809	4001644	SCOP2 (2022-06-29)
C	SCOP2 Family	Lactophage receptor-binding protein domain	8023812	4002162	SCOP2 (2022-06-29)
C	SCOP2 Family	Lactophage receptor-binding protein N-terminal domain	8023814	4002179	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	Virus attachment protein globular domain	8036189	3001376	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	Phage fibre proteins	8036192	3000351	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	Bacteriophage trimeric proteins domain	8036194	3000915	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)
A	PF20747	e1zruA2	A: beta sandwiches	X: Lactophage receptor-binding protein N-terminal domain-like (From Topology)	H: Lactophage receptor-binding protein N-terminal domain-like (From Topology)	T: Lactophage receptor-binding protein N-terminal domain-like	F: PF20747	ECOD (1.6)
A	PF08931	e1zruA1	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: PF08931	ECOD (1.6)
A	PF21564	e1zruA3	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: PF21564	ECOD (1.6)
B	PF20747	e1zruB3	A: beta sandwiches	X: Lactophage receptor-binding protein N-terminal domain-like (From Topology)	H: Lactophage receptor-binding protein N-terminal domain-like (From Topology)	T: Lactophage receptor-binding protein N-terminal domain-like	F: PF20747	ECOD (1.6)
B	PF08931	e1zruB2	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: PF08931	ECOD (1.6)
B	F_UNCLASSIFIED	e1zruB1	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: F_UNCLASSIFIED	ECOD (1.6)
B	PF21564	e1zruB4	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: PF21564	ECOD (1.6)
C	PF20747	e1zruC2	A: beta sandwiches	X: Lactophage receptor-binding protein N-terminal domain-like (From Topology)	H: Lactophage receptor-binding protein N-terminal domain-like (From Topology)	T: Lactophage receptor-binding protein N-terminal domain-like	F: PF20747	ECOD (1.6)
C	PF08931	e1zruC1	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: PF08931	ECOD (1.6)
C	F_UNCLASSIFIED	e1zruC4	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: F_UNCLASSIFIED	ECOD (1.6)
C	PF21564	e1zruC3	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: PF21564	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.520.10	Mainly Beta	Sandwich	Triple-stranded beta-helix	Phage fibre proteins	CATH (4.3.0)
A	2.60.40.1830	Mainly Beta	Sandwich	Immunoglobulin-like	Phage tail base-plate Siphoviridae RBP, head domain	CATH (4.3.0)
B	2.60.520.10	Mainly Beta	Sandwich	Triple-stranded beta-helix	Phage fibre proteins	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	2.60.520.10	Mainly Beta	Sandwich	Triple-stranded beta-helix	Phage fibre proteins	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	PF21564	Lactococcus phage p2, Receptor binding protein, neck domain (Caudo_bapla_RBP_neck)	Lactococcus phage p2, Receptor binding protein, neck domain	This domain is found centrally located in Receptor binding protein from Lactococcus phage p2 (RBP, also known as Gp18) and similar proteins from closely related lactococcal phages. RBP shows three domains: the N-terminal shoulder domain (Pfam:PF20747 ...	This domain is found centrally located in Receptor binding protein from Lactococcus phage p2 (RBP, also known as Gp18) and similar proteins from closely related lactococcal phages. RBP shows three domains: the N-terminal shoulder domain (Pfam:PF20747), which is attached to the phage, the neck domain (this entry) and the C -terminal receptor-recognition head domain (Pfam:PF08931). The central domain folds into four beta-strands, which interlace with the beta-strands of two other subunits to form an equilateral triangular prism around the three-fold axis of a triple-stranded beta-helix [1,2].	Domain
A, B, C	PF20747	Lactophage receptor-binding protein N-terminal shoulder domain (Caudo_bapla_N)	Lactophage receptor-binding protein N-terminal shoulder domain	Caudo_bapla_RBP is a family of proteins expressed from ORF18 of the Lactococcus P2-like phage. This is one of three protein domain, shoulder, neck, and head, that form the phage tail base-plate. This entry represents the shoulder domain. This domain ...	Caudo_bapla_RBP is a family of proteins expressed from ORF18 of the Lactococcus P2-like phage. This is one of three protein domain, shoulder, neck, and head, that form the phage tail base-plate. This entry represents the shoulder domain. This domain contains a beta sandwich fold [1].	Domain
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	lactophage p2 receptor binding protein	-	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 receptor-mediated virion attachment to host cell entry receptor-mediated virion attachment to host cell cell adhesion cellular process	virus tail virion component virus tail, baseplate

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
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 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.