1PDJ | pdb_00001pdj

Fitting of gp27 into cryoEM reconstruction of bacteriophage T4 baseplate

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 [auth D]	d1pdjd_	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 [auth E]	d1pdje_	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 [auth F]	d1pdjf_	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 [auth D]	SCOP2B Superfamily	Phage tail proteins	8037751	3000268	SCOP2B (2022-06-29)
A [auth D]	SCOP2B Superfamily	Phage tail proteins	8037753	3000268	SCOP2B (2022-06-29)
B [auth E]	SCOP2B Superfamily	Phage tail proteins	8037751	3000268	SCOP2B (2022-06-29)
B [auth E]	SCOP2B Superfamily	Phage tail proteins	8037753	3000268	SCOP2B (2022-06-29)
C [auth F]	SCOP2B Superfamily	Phage tail proteins	8037751	3000268	SCOP2B (2022-06-29)
C [auth F]	SCOP2B Superfamily	Phage tail proteins	8037753	3000268	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 [auth D]	Phage-tail_1_N	e1pdjD2	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Phage tail proteins	F: Phage-tail_1_N	ECOD (1.6)
A [auth D]	Phage-tail_2_2nd	e1pdjD1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Phage tail proteins	F: Phage-tail_2_2nd	ECOD (1.6)
A [auth D]	Phage-tail_1_C	e1pdjD3	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: N0 domain in phage tail proteins and secretins (From Topology)	T: N0 domain in phage tail proteins and secretins	F: Phage-tail_1_C	ECOD (1.6)
A [auth D]	Phage-tail_2_1st	e1pdjD4	A: a+b complex topology	X: C-terminal insertion domain in phage tail proteins (From Topology)	H: C-terminal insertion domain in phage tail proteins (From Topology)	T: C-terminal insertion domain in phage tail proteins	F: Phage-tail_2_1st	ECOD (1.6)
B [auth E]	Phage-tail_1_N	e1pdjE2	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Phage tail proteins	F: Phage-tail_1_N	ECOD (1.6)
B [auth E]	Phage-tail_2_2nd	e1pdjE1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Phage tail proteins	F: Phage-tail_2_2nd	ECOD (1.6)
B [auth E]	Phage-tail_1_C	e1pdjE3	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: N0 domain in phage tail proteins and secretins (From Topology)	T: N0 domain in phage tail proteins and secretins	F: Phage-tail_1_C	ECOD (1.6)
B [auth E]	Phage-tail_2_1st	e1pdjE4	A: a+b complex topology	X: C-terminal insertion domain in phage tail proteins (From Topology)	H: C-terminal insertion domain in phage tail proteins (From Topology)	T: C-terminal insertion domain in phage tail proteins	F: Phage-tail_2_1st	ECOD (1.6)
C [auth F]	Phage-tail_1_N	e1pdjF2	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Phage tail proteins	F: Phage-tail_1_N	ECOD (1.6)
C [auth F]	Phage-tail_2_2nd	e1pdjF1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Phage tail proteins	F: Phage-tail_2_2nd	ECOD (1.6)
C [auth F]	Phage-tail_1_C	e1pdjF3	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: N0 domain in phage tail proteins and secretins (From Topology)	T: N0 domain in phage tail proteins and secretins	F: Phage-tail_1_C	ECOD (1.6)
C [auth F]	Phage-tail_2_1st	e1pdjF4	A: a+b complex topology	X: C-terminal insertion domain in phage tail proteins (From Topology)	H: C-terminal insertion domain in phage tail proteins (From Topology)	T: C-terminal insertion domain in phage tail proteins	F: Phage-tail_2_1st	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth D], B [auth E], C [auth F]	PF09096	Baseplate structural protein, domain 2 (Phage-tail_2)	Baseplate structural protein, domain 2	Members of this family adopt a beta barrel structure with a Greek key topology, which is topologically similar to the FMN-binding split barrel. They are structural component of the viral baseplate, predominantly found in the structural protein gp27 [ ...	Members of this family adopt a beta barrel structure with a Greek key topology, which is topologically similar to the FMN-binding split barrel. They are structural component of the viral baseplate, predominantly found in the structural protein gp27 [1].	Domain
A [auth D], B [auth E], C [auth F]	PF09097	Baseplate structural protein, domain 1 (Phage-tail_1)	Baseplate structural protein, domain 1	Members of this family adopt a beta barrel structure with a Greek key topology, which is topologically similar to the FMN-binding split barrel. They are structural component of the viral baseplate, predominantly found in the structural protein gp27 [ ...	Members of this family adopt a beta barrel structure with a Greek key topology, which is topologically similar to the FMN-binding split barrel. They are structural component of the viral baseplate, predominantly found in the structural protein gp27 [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth D], B [auth E], C [auth F]	Baseplate structural protein Gp27	-	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 [auth D], B [auth E], C [auth F]	IPR015180	Bacteriophage T4, Gp27, baseplate hub, C-terminal	Domain
A [auth D], B [auth E], C [auth F]	IPR043084	Gp27, baseplate hub, domain 4	Homologous Superfamily
A [auth D], B [auth E], C [auth F]	IPR043083	Gp27, baseplate hub, domain 3	Homologous Superfamily
A [auth D], B [auth E], C [auth F]	IPR043085	Gp27, baseplate hub, domain 2	Homologous Superfamily
A [auth D], B [auth E], C [auth F]	IPR043504	Peptidase S1, PA clan, chymotrypsin-like fold	Homologous Superfamily
A [auth D], B [auth E], C [auth F]	IPR015181	Bacteriophage T4, Gp27, baseplate hub, N-terminal	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.