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)
Z	RRM_1	e6b43Z1	A: alpha arrays	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v295.2)
Y	RRM_1	e6b43Y1	A: alpha arrays	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v295.2)
R	RRM_1	e6b43R1	A: alpha arrays	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v295.2)
Q	RRM_1	e6b43Q1	A: alpha arrays	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v295.2)
P	RRM_1	e6b43P1	A: alpha arrays	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v295.2)
L	RRM_1	e6b43L1	A: alpha arrays	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v295.2)
K	RRM_1	e6b43K1	A: alpha arrays	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v295.2)
J	RRM_1	e6b43J1	A: alpha arrays	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v295.2)
I	RRM_1	e6b43I1	A: alpha arrays	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v295.2)
H	RRM_1	e6b43H1	A: alpha arrays	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v295.2)
G	RRM_1	e6b43G1	A: alpha arrays	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v295.2)
DA [auth 3]	RRM_1	e6b4331	A: alpha arrays	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v295.2)
CA [auth 2]	RRM_1	e6b4321	A: alpha arrays	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v295.2)
BA [auth 1]	RRM_1	e6b4311	A: alpha arrays	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v295.2)
AA [auth 0]	RRM_1	e6b4301	A: alpha arrays	X: SH3	H: SH3	T: SH3	F: RRM_1	ECOD (v295.2)
X	AAA_lid_3	e6b43X1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA_lid_3	ECOD (v295.2)
W	AAA_lid_3	e6b43W1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA_lid_3	ECOD (v295.2)
V	AAA_lid_3	e6b43V1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA_lid_3	ECOD (v295.2)
U	AAA_lid_3	e6b43U1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA_lid_3	ECOD (v295.2)
T	AAA_lid_3	e6b43T1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA_lid_3	ECOD (v295.2)
S	AAA_lid_3	e6b43S1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA_lid_3	ECOD (v295.2)
O	AAA_lid_3	e6b43O1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA_lid_3	ECOD (v295.2)
N	AAA_lid_3	e6b43N1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA_lid_3	ECOD (v295.2)
M	AAA_lid_3	e6b43M1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA_lid_3	ECOD (v295.2)
F	AAA_lid_3	e6b43F1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA_lid_3	ECOD (v295.2)
EA [auth 4]	Helicase_C	e6b4341	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: Helicase_C	ECOD (v295.2)
E	AAA_lid_3	e6b43E1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA_lid_3	ECOD (v295.2)
D	AAA_lid_3	e6b43D1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA_lid_3	ECOD (v295.2)
C	AAA_lid_3	e6b43C1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA_lid_3	ECOD (v295.2)
B	AAA_lid_3	e6b43B1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA_lid_3	ECOD (v295.2)
A	AAA_lid_3	e6b43A1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA_lid_3	ECOD (v295.2)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
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
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

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
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
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

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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.