1TJA

Fitting of gp8, gp9, and gp11 into the cryo-EM reconstruction of the bacteriophage T4 contracted tail

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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	d1tjaa_	Low resolution protein structures	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
B	d1tjab_	Low resolution protein structures	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
C	d1tjac_	Low resolution protein structures	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
D	d1tjad_	Low resolution protein structures	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
E	d1tjae_	Low resolution protein structures	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
F	d1tjaf_	Low resolution protein structures	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
G	d1tjag_	Low resolution protein structures	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
H	d1tjah_	Low resolution protein structures	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	Bacteriophage T4 3D cryo-EM reconstruction	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Baseplate structural protein gp8	8033088	3002009	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Baseplate structural protein gp8	8033088	3002009	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	gp9	8041251	3000227	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	gp9	8041251	3000227	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	gp9	8041251	3000227	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Baseplate structural protein gp11	8037280	3001519	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Baseplate structural protein gp11	8037280	3001519	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Baseplate structural protein gp11	8037280	3001519	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)
C	T4_gp9_10_C	e1tjaC2	A: beta sandwiches	X: gp9 C-terminal domain-like	H: gp9 C-terminal domain-related (From Topology)	T: gp9 C-terminal domain-related	F: T4_gp9_10_C	ECOD (1.6)
C	T4_gp9_10_N	e1tjaC1	A: beta sandwiches	X: gp9 N-terminal domain-like	H: gp9 N-terminal domain-related (From Topology)	T: gp9 N-terminal domain-related	F: T4_gp9_10_N	ECOD (1.6)
D	T4_gp9_10_C	e1tjaD2	A: beta sandwiches	X: gp9 C-terminal domain-like	H: gp9 C-terminal domain-related (From Topology)	T: gp9 C-terminal domain-related	F: T4_gp9_10_C	ECOD (1.6)
D	T4_gp9_10_N	e1tjaD1	A: beta sandwiches	X: gp9 N-terminal domain-like	H: gp9 N-terminal domain-related (From Topology)	T: gp9 N-terminal domain-related	F: T4_gp9_10_N	ECOD (1.6)
E	T4_gp9_10_C	e1tjaE2	A: beta sandwiches	X: gp9 C-terminal domain-like	H: gp9 C-terminal domain-related (From Topology)	T: gp9 C-terminal domain-related	F: T4_gp9_10_C	ECOD (1.6)
E	T4_gp9_10_N	e1tjaE1	A: beta sandwiches	X: gp9 N-terminal domain-like	H: gp9 N-terminal domain-related (From Topology)	T: gp9 N-terminal domain-related	F: T4_gp9_10_N	ECOD (1.6)
F	GP11_2nd	e1tjaF1	A: beta sandwiches	X: gp11/flagellar cap protein FliD insertion domain (From Topology)	H: gp11/flagellar cap protein FliD insertion domain (From Topology)	T: gp11/flagellar cap protein FliD insertion domain	F: GP11_2nd	ECOD (1.6)
F	GP11_1st	e1tjaF2	A: a+b duplicates or obligate multimers	X: gp11/gp12 receptor-binding domain (From Topology)	H: gp11/gp12 receptor-binding domain (From Topology)	T: gp11/gp12 receptor-binding domain	F: GP11_1st	ECOD (1.6)
G	GP11_2nd	e1tjaG1	A: beta sandwiches	X: gp11/flagellar cap protein FliD insertion domain (From Topology)	H: gp11/flagellar cap protein FliD insertion domain (From Topology)	T: gp11/flagellar cap protein FliD insertion domain	F: GP11_2nd	ECOD (1.6)
G	GP11_1st	e1tjaG2	A: a+b duplicates or obligate multimers	X: gp11/gp12 receptor-binding domain (From Topology)	H: gp11/gp12 receptor-binding domain (From Topology)	T: gp11/gp12 receptor-binding domain	F: GP11_1st	ECOD (1.6)
H	GP11_2nd	e1tjaH1	A: beta sandwiches	X: gp11/flagellar cap protein FliD insertion domain (From Topology)	H: gp11/flagellar cap protein FliD insertion domain (From Topology)	T: gp11/flagellar cap protein FliD insertion domain	F: GP11_2nd	ECOD (1.6)
H	GP11_1st	e1tjaH2	A: a+b duplicates or obligate multimers	X: gp11/gp12 receptor-binding domain (From Topology)	H: gp11/gp12 receptor-binding domain (From Topology)	T: gp11/gp12 receptor-binding domain	F: GP11_1st	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF09215	Bacteriophage T4, Gp8 (Phage-Gp8)	Bacteriophage T4, Gp8	Members of this family of viral baseplate structural proteins adopt a structure consisting of a three-layer beta-sandwich with two finger-like loops containing an alpha-helix at the opposite sides of the sandwich. The two peripheral, five-stranded, a ...	Members of this family of viral baseplate structural proteins adopt a structure consisting of a three-layer beta-sandwich with two finger-like loops containing an alpha-helix at the opposite sides of the sandwich. The two peripheral, five-stranded, antiparallel beta-sheets are stacked against the middle, four-stranded, antiparallel beta-sheet. Attachment of this family of proteins to the baseplate during assembly creates a binding site for subsequent attachment of Gp6 [1].	Domain
C, D, E	PF07880	Bacteriophage T4 gp9/10-like protein, N-terminal (T4_gp9_10_N)	Bacteriophage T4 gp9/10-like protein, N-terminal	This entry represents the N-terminal domain of Baseplate protein gp9 from Bacteriophage T4, a component of the viral baseplate [1]. Gp9 connects the long tail fibres of the virus to the baseplate and triggers tail contraction after viral attachment t ...	This entry represents the N-terminal domain of Baseplate protein gp9 from Bacteriophage T4, a component of the viral baseplate [1]. Gp9 connects the long tail fibres of the virus to the baseplate and triggers tail contraction after viral attachment to a host cell. The protein is active as a trimer, with each monomer being composed of three domains. The N-terminal domain consists of an extended polypeptide chain and two alpha helices. The alpha1 helix from each of the three monomers in the trimer interacts with its counterparts to form a coiled-coil structure. The middle domain is a seven-stranded beta-sandwich. This entry represents the region including these two domains. Noticeably, the long flexible region between N-terminal and middle domains may be required for the function of gp9 to transmit signals from the long tail fibres [2]. Together with gp11, gp10 initiates the assembly of wedges that then go on to associate with a hub to form the viral baseplate [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Baseplate structural protein Gp8	-	virion assembly viral tail assembly viral process viral life cycle	virus tail virion component virus tail, baseplate
C, D, E	Baseplate structural protein Gp9	-	exit from host cell biological process involved in interspecies interaction between organisms viral process viral release from host cell viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction virion assembly viral tail assembly	virus tail virion component virus tail, baseplate
F, G, H	Baseplate structural protein Gp11	-	virion assembly viral tail assembly viral process viral life cycle	virus tail virion component virus tail, baseplate

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR036327	Bacteriophage T4, Gp8 superfamily	Homologous Superfamily
A, B	IPR015298	Bacteriophage T4, Gp8	Domain
C, D, E	IPR036240	Gp9-like superfamily	Homologous Superfamily
C, D, E	IPR008987	Baseplate structural protein Gp9/Gp10, N-terminal domain	Domain
C, D, E	IPR027412	Baseplate structural protein Gp9 C-terminal domain superfamily	Homologous Superfamily
C, D, E	IPR027411	Baseplate structural protein Gp9/Gp10 middle domain superfamily	Homologous Superfamily
F, G, H	IPR015982	Baseplate structural protein Gp11, N-terminal domain superfamily	Homologous Superfamily
F, G, H	IPR015976	Bacteriophage T4, Gp11, C-terminal finger domain	Homologous Superfamily
F, G, H	IPR043180	Baseplate structural protein Gp11, C-terminal domain	Homologous Superfamily
F, G, H	IPR014791	Baseplate structural protein Gp11	Family
F, G, H	IPR036214	Baseplate structural protein Gp11 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.