3BP9 | pdb_00003bp9

Structure of B-tropic MLV capsid N-terminal domain

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
X [auth Y]	d3bp9y_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
W [auth X]	d3bp9x_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
V	d3bp9v_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
U	d3bp9u_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
T	d3bp9t_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
S	d3bp9s_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
R	d3bp9r_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
Q	d3bp9q_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
P	d3bp9p_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
O	d3bp9o_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
N	d3bp9n_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
M	d3bp9m_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
L	d3bp9l_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
K	d3bp9k_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
J	d3bp9j_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
I	d3bp9i_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
H	d3bp9h_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
G	d3bp9g_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
F	d3bp9f_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
E	d3bp9e_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
D	d3bp9d_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
C	d3bp9c_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
B	d3bp9b_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)
A	d3bp9a_	All alpha proteins	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	Retrovirus capsid protein, N-terminal core domain	AKV capsid	(Murine leukemia virus ) [TaxId: 11786 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
X [auth Y]	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
W [auth X]	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
V	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
U	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
T	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
S	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
R	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
Q	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
P	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	3000745	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Retrovirus capsid protein, N-terminal core domain	8042802	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)
X [auth Y]	DUF3239	e3bp9Y1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
W [auth X]	DUF3239	e3bp9X1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
V	DUF3239	e3bp9V1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
U	DUF3239	e3bp9U1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
T	DUF3239	e3bp9T1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
S	DUF3239	e3bp9S1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
R	DUF3239	e3bp9R1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
Q	DUF3239	e3bp9Q1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
P	DUF3239	e3bp9P1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
O	DUF3239	e3bp9O1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
N	DUF3239	e3bp9N1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
M	DUF3239	e3bp9M1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
L	DUF3239	e3bp9L1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
K	DUF3239	e3bp9K1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
J	DUF3239	e3bp9J1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
I	DUF3239	e3bp9I1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
H	DUF3239	e3bp9H1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
G	DUF3239	e3bp9G1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
F	DUF3239	e3bp9F1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
E	DUF3239	e3bp9E1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
D	DUF3239	e3bp9D1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
C	DUF3239	e3bp9C1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
B	DUF3239	e3bp9B1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: DUF3239	ECOD (v294.1)
A	HRM	e3bp9A1	A: a/b three-layered sandwiches	X: Profilin-like	H: sensor domains	T: sensor domains	F: HRM	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
X [auth Y]	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
W [auth X]	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
V	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
U	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
T	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
S	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
R	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
Q	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
P	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
O	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
N	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
M	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
L	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
K	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
J	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
I	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
H	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
G	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
F	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
E	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
D	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
C	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
B	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)
A	1.10.375.10	Mainly Alpha	Orthogonal Bundle	Human Immunodeficiency Virus Type 1 Capsid Protein	Human Immunodeficiency Virus Type 1 Capsid Protein	CATH (4.3.0)

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, S, T, U, V, W [auth X], X [auth Y]	Gag protein	structural constituent of virion structural molecule activity cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding RNA binding nucleic acid binding	virion assembly viral process viral budding viral budding via host ESCRT complex viral life cycle	host intracellular membrane-bounded organelle host cellular component host intracellular part host multivesicular body other organism part host cell cytoplasm part host intracellular organelle cellular anatomical structure host cell cytoplasm host cell part host cell late endosome host cell endosome host intracellular region host cell plasma membrane host intracellular membrane-bounded organelle host cellular component host intracellular part host multivesicular body other organism part host cell cytoplasm part host intracellular organelle cellular anatomical structure host cell cytoplasm host cell part host cell late endosome host cell endosome host intracellular region host cell plasma membrane host cell membrane viral nucleocapsid viral capsid virion component

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, S, T, U, V, W [auth X], X [auth Y]	IPR050462	Retroviral Gag-Pol polyproteins	Family
A, B, C, D, E, A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W [auth X], X [auth Y]	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, S, T, U, V, W [auth X], X [auth Y]	IPR000840	Gamma-retroviral matrix protein	Domain
A, B, C, D, E, A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W [auth X], X [auth Y]	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, S, T, U, V, W [auth X], X [auth Y]	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, S, T, U, V, W [auth X], X [auth Y]	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, S, T, U, V, W [auth X], X [auth Y]	IPR036946	Gamma-retroviral matrix 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, S, T, U, V, W [auth X], X [auth Y]	IPR002079	Gag polyprotein, inner coat protein p12	Domain
A, B, C, D, E, A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W [auth X], X [auth Y]	IPR003036	Core shell protein Gag P30	Domain