6B43 | pdb_00006b43

CryoEM structure and atomic model of the Kaposi's sarcoma-associated herpesvirus capsid

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	MIF4G	e6b43A1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: MIF4G	ECOD (v294.2)
B	MIF4G	e6b43B1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: MIF4G	ECOD (v294.2)
C	MIF4G	e6b43C1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: MIF4G	ECOD (v294.2)
D	MIF4G	e6b43D1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: MIF4G	ECOD (v294.2)
E	MIF4G	e6b43E1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: MIF4G	ECOD (v294.2)
EA [auth 4]	Raptor_N	e6b4341	A: beta barrels	X: DNA methylase specificity domain	H: Bromodomain	T: Bromodomain	F: Raptor_N	ECOD (v294.2)
F	MIF4G	e6b43F1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: MIF4G	ECOD (v294.2)
M	MIF4G	e6b43M1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: MIF4G	ECOD (v294.2)
N	MIF4G	e6b43N1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: MIF4G	ECOD (v294.2)
O	MIF4G	e6b43O1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: MIF4G	ECOD (v294.2)
S	MIF4G	e6b43S1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: MIF4G	ECOD (v294.2)
T	MIF4G	e6b43T1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: MIF4G	ECOD (v294.2)
U	MIF4G	e6b43U1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: MIF4G	ECOD (v294.2)
V	MIF4G	e6b43V1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: MIF4G	ECOD (v294.2)
W	MIF4G	e6b43W1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: MIF4G	ECOD (v294.2)
X	MIF4G	e6b43X1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: MIF4G	ECOD (v294.2)
AA [auth 0]	RRM_1	e6b4301	A: beta barrels	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v294.2)
BA [auth 1]	RRM_1	e6b4311	A: beta barrels	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v294.2)
CA [auth 2]	RRM_1	e6b4321	A: beta barrels	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v294.2)
DA [auth 3]	RRM_1	e6b4331	A: beta barrels	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v294.2)
G	RRM_1	e6b43G1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v294.2)
H	RRM_1	e6b43H1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v294.2)
I	RRM_1	e6b43I1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v294.2)
J	RRM_1	e6b43J1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v294.2)
K	RRM_1	e6b43K1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v294.2)
L	RRM_1	e6b43L1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v294.2)
P	RRM_1	e6b43P1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v294.2)
Q	RRM_1	e6b43Q1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v294.2)
R	RRM_1	e6b43R1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v294.2)
Y	RRM_1	e6b43Y1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v294.2)
Z	RRM_1	e6b43Z1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v294.2)

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, EA [auth 4], F, M, N, O, S, T, U, V, W, X	Major capsid protein	structural molecule activity	-	viral capsid icosahedral viral capsid virion component T=16 icosahedral viral capsid
AA [auth 0], BA [auth 1], CA [auth 2], DA [auth 3], G, AA [auth 0], BA [auth 1], CA [auth 2], DA [auth 3], G, H, I, J, K, L, P, Q, R, Y, Z	Small capsomere-interacting protein	-	viral process	viral capsid virion component host intracellular membrane-bounded organelle host cellular component host intracellular part cellular anatomical structure host cell part host intracellular region host cell nucleus other organism part host intracellular organelle
FA [auth 5], IA [auth 8], LA [auth b], OA [auth e], RA [auth h]	Triplex capsid protein 1	DNA binding binding nucleic acid binding	virion assembly viral process viral capsid assembly viral life cycle	viral capsid virion component
GA [auth 6], HA [auth 7], JA [auth 9], KA [auth a], MA [auth c], GA [auth 6], HA [auth 7], JA [auth 9], KA [auth a], MA [auth c], NA [auth d], PA [auth f], QA [auth g], SA [auth i], TA [auth j]	Triplex capsid protein 2	structural molecule activity	-	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, EA [auth 4], F, M, N, O, S, T, U, V, W, X	IPR000912	Herpesvirus major capsid protein	Family
A, B, C, D, E, A, B, C, D, E, EA [auth 4], F, M, N, O, S, T, U, V, W, X	IPR023233	Herpesvirus major capsid protein, upper domain superfamily	Homologous Superfamily
AA [auth 0], BA [auth 1], CA [auth 2], DA [auth 3], G, AA [auth 0], BA [auth 1], CA [auth 2], DA [auth 3], G, H, I, J, K, L, P, Q, R, Y, Z	IPR009299	Gammaherpesvirus capsid	Family
FA [auth 5], IA [auth 8], LA [auth b], OA [auth e], RA [auth h]	IPR004999	Herpesvirus capsid shell protein 1	Family
GA [auth 6], HA [auth 7], JA [auth 9], KA [auth a], MA [auth c], GA [auth 6], HA [auth 7], JA [auth 9], KA [auth a], MA [auth c], NA [auth d], PA [auth f], QA [auth g], SA [auth i], TA [auth j]	IPR002690	Herpesvirus capsid protein 2	Family

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.