1PDM | pdb_00001pdm

Fitting of gp8 structure into the cryoEM reconstruction of the bacteriophage T4 baseplate

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 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)
L	d1pdml_	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)
K	d1pdmk_	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)
J	d1pdmj_	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)
I	d1pdmi_	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	d1pdmh_	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	d1pdmg_	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	d1pdmf_	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	d1pdme_	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	d1pdmd_	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	d1pdmc_	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	d1pdmb_	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)
A	d1pdma_	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)
L	SCOP2B Superfamily	Baseplate structural protein gp8	8033088	3002009	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Baseplate structural protein gp8	8033088	3002009	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Baseplate structural protein gp8	8033088	3002009	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Baseplate structural protein gp8	8033088	3002009	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Baseplate structural protein gp8	8033088	3002009	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Baseplate structural protein gp8	8033088	3002009	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Baseplate structural protein gp8	8033088	3002009	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Baseplate structural protein gp8	8033088	3002009	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Baseplate structural protein gp8	8033088	3002009	SCOP2B (2022-06-29)
C	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)
A	SCOP2B Superfamily	Baseplate structural protein gp8	8033088	3002009	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	Baseplate structural protein Gp8	-	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, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR036327	Bacteriophage T4, Gp8 superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR015298	Bacteriophage T4, Gp8	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.