5A9E | pdb_00005a9e

Cryo-electron tomography and subtomogram averaging of Rous-Sarcoma- Virus deltaMBD virus-like particles

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
R	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8037873	3000745	SCOP2B (2022-06-29)
Q	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8037873	3000745	SCOP2B (2022-06-29)
P	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8037873	3000745	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8037873	3000745	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8037873	3000745	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8037873	3000745	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8037873	3000745	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8037873	3000745	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8037873	3000745	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8037873	3000745	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8037873	3000745	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8037873	3000745	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8037873	3000745	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8037873	3000745	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8037873	3000745	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8037873	3000745	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8037873	3000745	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8037873	3000745	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	PepSY	e5a9eR1	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: C2 domain	T: C2 domain	F: PepSY	ECOD (v294.1)
R		e5a9eR2	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F:	ECOD (v294.1)
Q	PepSY	e5a9eQ1	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: C2 domain	T: C2 domain	F: PepSY	ECOD (v294.1)
Q		e5a9eQ2	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F:	ECOD (v294.1)
P	PepSY	e5a9eP2	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: C2 domain	T: C2 domain	F: PepSY	ECOD (v294.1)
P		e5a9eP3	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F:	ECOD (v294.1)
O	PepSY	e5a9eO2	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: C2 domain	T: C2 domain	F: PepSY	ECOD (v294.1)
O		e5a9eO3	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F:	ECOD (v294.1)
N	PepSY	e5a9eN2	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: C2 domain	T: C2 domain	F: PepSY	ECOD (v294.1)
N		e5a9eN3	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F:	ECOD (v294.1)
M	PepSY	e5a9eM1	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: C2 domain	T: C2 domain	F: PepSY	ECOD (v294.1)
M		e5a9eM2	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F:	ECOD (v294.1)
L	PepSY	e5a9eL1	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: C2 domain	T: C2 domain	F: PepSY	ECOD (v294.1)
L		e5a9eL2	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F:	ECOD (v294.1)
K	PepSY	e5a9eK2	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: C2 domain	T: C2 domain	F: PepSY	ECOD (v294.1)
K		e5a9eK3	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F:	ECOD (v294.1)
J	PepSY	e5a9eJ1	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: C2 domain	T: C2 domain	F: PepSY	ECOD (v294.1)
J		e5a9eJ2	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F:	ECOD (v294.1)
I	PepSY	e5a9eI1	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: C2 domain	T: C2 domain	F: PepSY	ECOD (v294.1)
I		e5a9eI2	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F:	ECOD (v294.1)
H	PepSY	e5a9eH1	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: C2 domain	T: C2 domain	F: PepSY	ECOD (v294.1)
H		e5a9eH2	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F:	ECOD (v294.1)
G	PepSY	e5a9eG2	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: C2 domain	T: C2 domain	F: PepSY	ECOD (v294.1)
G		e5a9eG3	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F:	ECOD (v294.1)
F	PepSY	e5a9eF2	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: C2 domain	T: C2 domain	F: PepSY	ECOD (v294.1)
F		e5a9eF3	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F:	ECOD (v294.1)
E	PepSY	e5a9eE1	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: C2 domain	T: C2 domain	F: PepSY	ECOD (v294.1)
E		e5a9eE2	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F:	ECOD (v294.1)
D	PepSY	e5a9eD2	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: C2 domain	T: C2 domain	F: PepSY	ECOD (v294.1)
D		e5a9eD3	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F:	ECOD (v294.1)
C	PepSY	e5a9eC1	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: C2 domain	T: C2 domain	F: PepSY	ECOD (v294.1)
C		e5a9eC2	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F:	ECOD (v294.1)
B	PepSY	e5a9eB1	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: C2 domain	T: C2 domain	F: PepSY	ECOD (v294.1)
B		e5a9eB2	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F:	ECOD (v294.1)
A	PepSY	e5a9eA2	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: C2 domain	T: C2 domain	F: PepSY	ECOD (v294.1)
A	Nup54_57_C	e5a9eA3	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F: Nup54_57_C	ECOD (v294.1)

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	DELTAMBD GAG PROTEIN	aspartic-type peptidase activity peptidase activity catalytic activity, acting on a protein hydrolase activity aspartic-type endopeptidase activity catalytic activity endopeptidase activity binding nucleic acid binding structural constituent of virion structural molecule activity cation binding transition metal ion binding zinc ion binding aspartic-type peptidase activity peptidase activity catalytic activity, acting on a protein hydrolase activity aspartic-type endopeptidase activity catalytic activity endopeptidase activity binding nucleic acid binding structural constituent of virion structural molecule activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	virus maturation viral life cycle viral capsid assembly viral procapsid maturation cellular component biogenesis cellular component organization virion assembly cellular component assembly viral process cellular process cellular component organization or biogenesis viral gene expression viral translational frameshifting viral translation virus maturation viral life cycle viral capsid assembly viral procapsid maturation cellular component biogenesis cellular component organization virion assembly cellular component assembly viral process cellular process cellular component organization or biogenesis viral gene expression viral translational frameshifting viral translation proteolysis metabolic process primary metabolic process protein metabolic process macromolecule metabolic process	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell nucleus other organism part host cell nucleoplasm host cell nuclear part host intracellular organelle cellular anatomical structure host cell part host intracellular region host cell nucleolus viral capsid virion component host intracellular membrane-bounded organelle host cellular component host intracellular part host cell nucleus other organism part host cell nucleoplasm host cell nuclear part host intracellular organelle cellular anatomical structure host cell part host intracellular region host cell nucleolus viral capsid virion component host cell plasma membrane host cell membrane

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	IPR004028	Retroviral Gag polyprotein, M	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R	IPR036875	Zinc finger, CCHC-type 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	IPR050195	Primate lentivirus group Gag polyprotein-like	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R	IPR001995	Peptidase A2A, retrovirus, catalytic	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R	IPR034170	Retropepsin-like catalytic 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	IPR001878	Zinc finger, CCHC-type	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R	IPR008919	Retrovirus capsid, N-terminal	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	IPR010999	Retroviral matrix protein	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	IPR012344	Matrix protein, lentiviral and alpha-retroviral, N-terminal	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	IPR021109	Aspartic peptidase 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	IPR001969	Aspartic peptidase, active site	Active Site
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R	IPR018061	Retropepsins	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R	IPR008916	Retrovirus capsid, C-terminal	Homologous Superfamily