4OQ9 | pdb_00004oq9

Satellite Tobacco Mosaic Virus Refined to 1.4 A Resolution using non-crystallographic symmetry restraints

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)
A	d4oq9a_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Satellite viruses	Satellite viruses	STNV coat protein	(Satellite tobacco mosaic virus ) [TaxId: 12881 ],	SCOPe (2.08)
B	d4oq9b_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Satellite viruses	Satellite viruses	STNV coat protein	(Satellite tobacco mosaic virus ) [TaxId: 12881 ],	SCOPe (2.08)
C	d4oq9c_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Satellite viruses	Satellite viruses	STNV coat protein	(Satellite tobacco mosaic virus ) [TaxId: 12881 ],	SCOPe (2.08)
D	d4oq9d_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Satellite viruses	Satellite viruses	STNV coat protein	(Satellite tobacco mosaic virus ) [TaxId: 12881 ],	SCOPe (2.08)
E	d4oq9e_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Satellite viruses	Satellite viruses	STNV coat protein	(Satellite tobacco mosaic virus ) [TaxId: 12881 ],	SCOPe (2.08)
F	d4oq9f_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Satellite viruses	Satellite viruses	STNV coat protein	(Satellite tobacco mosaic virus ) [TaxId: 12881 ],	SCOPe (2.08)
G	d4oq9g_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Satellite viruses	Satellite viruses	STNV coat protein	(Satellite tobacco mosaic virus ) [TaxId: 12881 ],	SCOPe (2.08)
H	d4oq9h_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Satellite viruses	Satellite viruses	STNV coat protein	(Satellite tobacco mosaic virus ) [TaxId: 12881 ],	SCOPe (2.08)
I	d4oq9i_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Satellite viruses	Satellite viruses	STNV coat protein	(Satellite tobacco mosaic virus ) [TaxId: 12881 ],	SCOPe (2.08)
J	d4oq9j_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Satellite viruses	Satellite viruses	STNV coat protein	(Satellite tobacco mosaic virus ) [TaxId: 12881 ],	SCOPe (2.08)
K	d4oq9k_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Satellite viruses	Satellite viruses	STNV coat protein	(Satellite tobacco mosaic virus ) [TaxId: 12881 ],	SCOPe (2.08)
L	d4oq9l_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Satellite viruses	Satellite viruses	STNV coat protein	(Satellite tobacco mosaic virus ) [TaxId: 12881 ],	SCOPe (2.08)
M	d4oq9m_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Satellite viruses	Satellite viruses	STNV coat protein	(Satellite tobacco mosaic virus ) [TaxId: 12881 ],	SCOPe (2.08)
N	d4oq9n_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Satellite viruses	Satellite viruses	STNV coat protein	(Satellite tobacco mosaic virus ) [TaxId: 12881 ],	SCOPe (2.08)
O	d4oq9o_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Satellite viruses	Satellite viruses	STNV coat protein	(Satellite tobacco mosaic virus ) [TaxId: 12881 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Satellite viruses	8040781	3000942	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Satellite viruses	8040781	3000942	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Satellite viruses	8040781	3000942	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Satellite viruses	8040781	3000942	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Satellite viruses	8040781	3000942	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Satellite viruses	8040781	3000942	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Satellite viruses	8040781	3000942	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Satellite viruses	8040781	3000942	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Satellite viruses	8040781	3000942	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Satellite viruses	8040781	3000942	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Satellite viruses	8040781	3000942	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	Satellite viruses	8040781	3000942	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	Satellite viruses	8040781	3000942	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	Satellite viruses	8040781	3000942	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	Satellite viruses	8040781	3000942	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	EUF07641	e4oq9A1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: EUF07641	ECOD (1.6)
B	EUF07641	e4oq9B1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: EUF07641	ECOD (1.6)
C	EUF07641	e4oq9C1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: EUF07641	ECOD (1.6)
D	EUF07641	e4oq9D1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: EUF07641	ECOD (1.6)
E	EUF07641	e4oq9E1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: EUF07641	ECOD (1.6)
F	EUF07641	e4oq9F1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: EUF07641	ECOD (1.6)
G	EUF07641	e4oq9G1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: EUF07641	ECOD (1.6)
H	EUF07641	e4oq9H1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: EUF07641	ECOD (1.6)
I	EUF07641	e4oq9I1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: EUF07641	ECOD (1.6)
J	EUF07641	e4oq9J1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: EUF07641	ECOD (1.6)
K	EUF07641	e4oq9K1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: EUF07641	ECOD (1.6)
L	EUF07641	e4oq9L1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: EUF07641	ECOD (1.6)
M	EUF07641	e4oq9M1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: EUF07641	ECOD (1.6)
N	EUF07641	e4oq9N1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: EUF07641	ECOD (1.6)
O	EUF07641	e4oq9O1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: EUF07641	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.120.220	Mainly Beta	Sandwich	Jelly Rolls	Satellite virus coat domain	CATH (4.3.0)
B	2.60.120.220	Mainly Beta	Sandwich	Jelly Rolls	Satellite virus coat domain	CATH (4.3.0)
C	2.60.120.220	Mainly Beta	Sandwich	Jelly Rolls	Satellite virus coat domain	CATH (4.3.0)
D	2.60.120.220	Mainly Beta	Sandwich	Jelly Rolls	Satellite virus coat domain	CATH (4.3.0)
E	2.60.120.220	Mainly Beta	Sandwich	Jelly Rolls	Satellite virus coat domain	CATH (4.3.0)
F	2.60.120.220	Mainly Beta	Sandwich	Jelly Rolls	Satellite virus coat domain	CATH (4.3.0)
G	2.60.120.220	Mainly Beta	Sandwich	Jelly Rolls	Satellite virus coat domain	CATH (4.3.0)
H	2.60.120.220	Mainly Beta	Sandwich	Jelly Rolls	Satellite virus coat domain	CATH (4.3.0)
I	2.60.120.220	Mainly Beta	Sandwich	Jelly Rolls	Satellite virus coat domain	CATH (4.3.0)
J	2.60.120.220	Mainly Beta	Sandwich	Jelly Rolls	Satellite virus coat domain	CATH (4.3.0)
K	2.60.120.220	Mainly Beta	Sandwich	Jelly Rolls	Satellite virus coat domain	CATH (4.3.0)
L	2.60.120.220	Mainly Beta	Sandwich	Jelly Rolls	Satellite virus coat domain	CATH (4.3.0)
M	2.60.120.220	Mainly Beta	Sandwich	Jelly Rolls	Satellite virus coat domain	CATH (4.3.0)
N	2.60.120.220	Mainly Beta	Sandwich	Jelly Rolls	Satellite virus coat domain	CATH (4.3.0)
O	2.60.120.220	Mainly Beta	Sandwich	Jelly Rolls	Satellite virus coat domain	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	Coat protein	structural molecule activity	-	viral capsid virion component
AA [auth a], BA [auth b], CA [auth c], DA [auth d], P, AA [auth a], BA [auth b], CA [auth c], DA [auth d], P, Q, R, S, T, U, V, W, X, Y, Z	RNA (5'-R(PAPAPAPAPAPAPAPAPAPA)-3')	-	-	-
EA [auth e], FA [auth f], GA [auth g], HA [auth h], IA [auth i], EA [auth e], FA [auth f], GA [auth g], HA [auth h], IA [auth i], JA [auth j], KA [auth k], LA [auth l], MA [auth m], NA [auth n], OA [auth o], PA [auth p], QA [auth q], RA [auth r], SA [auth s]	RNA (5'-R(PUPUPUPUPUPUPUPUPUPU)-3')	-	-	-
AB [auth 1], BB [auth 2], CB [auth 3], DB [auth 4], EB [auth 5], AB [auth 1], BB [auth 2], CB [auth 3], DB [auth 4], EB [auth 5], FB [auth 6], GB [auth 7], HB [auth 8], TA [auth t], UA [auth u], VA [auth v], WA [auth w], XA [auth x], YA [auth y], ZA [auth z]	RNA (5'-R(PUPU)-3')	-	-	-

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	IPR037164	Satellite virus coat domain superfamily	Homologous Superfamily

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.