9EUG | pdb_00009eug

Cryo-EM structure of Staphylococcus aureus bacteriophage phi812 baseplate in the pre-contraction state - core, wedge module, and proximal tail proteins

External Resource: Annotation

Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF26461	Phi812 tail tube protein (Phi812_tail_tube)	Phi812 tail tube protein	This entry represents the tail tube protein of bacteriophage phi812 and related proteins. Phi812 is a bacteriophage that infects Staphylococcus aureus, including many methicillin-resistant strains (MRSA). The tail tube protein of phi812 adopts an eig ...	This entry represents the tail tube protein of bacteriophage phi812 and related proteins. Phi812 is a bacteriophage that infects Staphylococcus aureus, including many methicillin-resistant strains (MRSA). The tail tube protein of phi812 adopts an eight-stranded beta-barrel fold with a protruding stacking loop, characteristic for tail tube proteins of long-tailed phages. In a native tail, the phi812 tail sheath proteins interact with tail tube proteins and mediate substantial contacts between tail sheath proteins.	Domain
C, D, I, K	PF04865	Baseplate J-like protein barrel domain (Baseplate_J)	Baseplate J-like protein barrel domain	The P2 bacteriophage J protein lies at the edge of the baseplate. This family also includes a number of bacterial homologues, which are thought to have been horizontally transferred. This entry represents a six stranded beta barrel domain found in va ...	The P2 bacteriophage J protein lies at the edge of the baseplate. This family also includes a number of bacterial homologues, which are thought to have been horizontally transferred. This entry represents a six stranded beta barrel domain found in various baseplate J-like proteins.	Domain
L, O	PF10934	Contractile injection system sheath initiator (Sheath_initiator)	Contractile injection system sheath initiator	-	Family
AA [auth a], R, S, V, W, AA [auth a], R, S, V, W, Z	PF26461	Phi812 tail tube protein (Phi812_tail_tube)	Phi812 tail tube protein	This entry represents the tail tube protein of bacteriophage phi812 and related proteins. Phi812 is a bacteriophage that infects Staphylococcus aureus, including many methicillin-resistant strains (MRSA). The tail tube protein of phi812 adopts an eig ...	This entry represents the tail tube protein of bacteriophage phi812 and related proteins. Phi812 is a bacteriophage that infects Staphylococcus aureus, including many methicillin-resistant strains (MRSA). The tail tube protein of phi812 adopts an eight-stranded beta-barrel fold with a protruding stacking loop, characteristic for tail tube proteins of long-tailed phages. In a native tail, the phi812 tail sheath proteins interact with tail tube proteins and mediate substantial contacts between tail sheath proteins.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	NlpC/P60 domain-containing protein	cysteine-type peptidase activity peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity	biological process involved in interspecies interaction between organisms symbiont-mediated cytolysis of host cell disruption of cell in another organism cytolysis biological process involved in interaction with host biological process involved in symbiotic interaction cytolysis in another organism cellular process disruption of anatomical structure in another organism symbiont-mediated killing of host cell killing of cells of another organism cell killing proteolysis metabolic process biological process involved in interspecies interaction between organisms symbiont-mediated cytolysis of host cell disruption of cell in another organism cytolysis biological process involved in interaction with host biological process involved in symbiotic interaction cytolysis in another organism cellular process disruption of anatomical structure in another organism symbiont-mediated killing of host cell killing of cells of another organism cell killing proteolysis metabolic process primary metabolic process protein metabolic process macromolecule metabolic process	-
C, D, I, K	Baseplate component	-	-	-
E	Peptidase C51 domain-containing protein	-	biological process involved in interspecies interaction between organisms symbiont-mediated cytolysis of host cell disruption of cell in another organism cytolysis biological process involved in interaction with host biological process involved in symbiotic interaction cytolysis in another organism cellular process disruption of anatomical structure in another organism symbiont-mediated killing of host cell killing of cells of another organism cell killing	-
F, G	Baseplate component	-	-	-
H, J	TmpF	-	-	-
L, O	Baseplate wedge subunit	-	-	-
P, Q, T, U, X P, Q, T, U, X, Y	Major tail sheath protein	-	-	-
AA [auth a], R, S, V, W, AA [auth a], R, S, V, W, Z	Capsid protein	-	-	-
M, N	Putative baseplate component	-	-	-
B	GP-PDE domain-containing protein	phosphoric ester hydrolase activity hydrolase activity, acting on ester bonds phosphoric diester hydrolase activity hydrolase activity catalytic activity	primary metabolic process metabolic process cellular process lipid metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR058723	Weld-like protein, Lid domain	Domain
A	IPR000064	Endopeptidase, NLPC/P60 domain	Domain
A	IPR038765	Papain-like cysteine peptidase superfamily	Homologous Superfamily
C, D, I, K	IPR006949	Baseplate protein J-like, barrel domain	Domain
E	IPR007921	CHAP domain	Domain
E	IPR038765	Papain-like cysteine peptidase superfamily	Homologous Superfamily
L, O	IPR036779	LysM domain superfamily	Homologous Superfamily
L, O	IPR020288	Contractile injection system sheath initiator	Family
L, O	IPR018392	LysM domain	Domain
AA [auth a], R, S, V, W, AA [auth a], R, S, V, W, Z	IPR058640	Phage Phi812, Virion protein 5	Family
M, N	IPR056958	Phage tail tube initiator protein, putative	Family
B	IPR030395	Glycerophosphodiester phosphodiesterase domain	Domain
B	IPR017946	PLC-like phosphodiesterase, TIM beta/alpha-barrel 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.