1PDP | pdb_00001pdp

Fitting of gp9 structure into the bacteriophage T4 baseplate cryoEM reconstruction

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)
R	d1pdpr_	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)
Q	d1pdpq_	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)
P	d1pdpp_	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)
O	d1pdpo_	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)
N	d1pdpn_	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)
M	d1pdpm_	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)
L	d1pdpl_	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	d1pdpk_	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	d1pdpj_	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	d1pdpi_	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	d1pdph_	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	d1pdpg_	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	d1pdpf_	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	d1pdpe_	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	d1pdpd_	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	d1pdpc_	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	d1pdpb_	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	d1pdpa_	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)
R	SCOP2B Superfamily	gp9	8041251	3000227	SCOP2B (2022-06-29)
Q	SCOP2B Superfamily	gp9	8041251	3000227	SCOP2B (2022-06-29)
P	SCOP2B Superfamily	gp9	8041251	3000227	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	gp9	8041251	3000227	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	gp9	8041251	3000227	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	gp9	8041251	3000227	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	gp9	8041251	3000227	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	gp9	8041251	3000227	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	gp9	8041251	3000227	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	gp9	8041251	3000227	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	gp9	8041251	3000227	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	gp9	8041251	3000227	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	gp9	8041251	3000227	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	gp9	8041251	3000227	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	gp9	8041251	3000227	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	gp9	8041251	3000227	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	gp9	8041251	3000227	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	gp9	8041251	3000227	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)
R	T4_gp9_10_C	e1pdpR2	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)
R	T4_gp9_10_N	e1pdpR1	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)
Q	T4_gp9_10_C	e1pdpQ2	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)
Q	T4_gp9_10_N	e1pdpQ1	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)
P	T4_gp9_10_C	e1pdpP2	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)
P	T4_gp9_10_N	e1pdpP1	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)
O	T4_gp9_10_C	e1pdpO2	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)
O	T4_gp9_10_N	e1pdpO1	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)
N	T4_gp9_10_C	e1pdpN2	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)
N	T4_gp9_10_N	e1pdpN1	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)
M	T4_gp9_10_C	e1pdpM2	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)
M	T4_gp9_10_N	e1pdpM1	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)
L	T4_gp9_10_C	e1pdpL2	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)
L	T4_gp9_10_N	e1pdpL1	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)
K	T4_gp9_10_C	e1pdpK2	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)
K	T4_gp9_10_N	e1pdpK1	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)
J	T4_gp9_10_C	e1pdpJ2	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)
J	T4_gp9_10_N	e1pdpJ1	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)
I	T4_gp9_10_C	e1pdpI2	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)
I	T4_gp9_10_N	e1pdpI1	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)
H	T4_gp9_10_C	e1pdpH2	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)
H	T4_gp9_10_N	e1pdpH1	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)
G	T4_gp9_10_C	e1pdpG2	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)
G	T4_gp9_10_N	e1pdpG1	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	T4_gp9_10_C	e1pdpF2	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)
F	T4_gp9_10_N	e1pdpF1	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	e1pdpE2	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	e1pdpE1	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	e1pdpD2	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	e1pdpD1	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)
C	T4_gp9_10_C	e1pdpC2	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	e1pdpC1	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)
B	T4_gp9_10_C	e1pdpB2	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)
B	T4_gp9_10_N	e1pdpB1	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)
A	T4_gp9_10_C	e1pdpA2	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)
A	T4_gp9_10_N	e1pdpA1	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)

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, M, N, O, P, Q, R	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, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R	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

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, M, N, O, P, Q, R	IPR036240	Gp9-like superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R	IPR008987	Baseplate structural protein Gp9/Gp10, N-terminal domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R	IPR027412	Baseplate structural protein Gp9 C-terminal domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R	IPR056391	Baseplate protein gp9-like, C-terminal	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R	IPR027411	Baseplate structural protein Gp9/Gp10 middle domain superfamily	Homologous Superfamily