6B43 | pdb_00006b43

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

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
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	Herpes_capsid	e6b43Z1	A: alpha bundles	X: Smallest capsid protein (SCP) (From Topology)	H: Smallest capsid protein (SCP) (From Topology)	T: Smallest capsid protein (SCP)	F: Herpes_capsid	ECOD (1.6)
Y	Herpes_capsid	e6b43Y1	A: alpha bundles	X: Smallest capsid protein (SCP) (From Topology)	H: Smallest capsid protein (SCP) (From Topology)	T: Smallest capsid protein (SCP)	F: Herpes_capsid	ECOD (1.6)
R	Herpes_capsid	e6b43R1	A: alpha bundles	X: Smallest capsid protein (SCP) (From Topology)	H: Smallest capsid protein (SCP) (From Topology)	T: Smallest capsid protein (SCP)	F: Herpes_capsid	ECOD (1.6)
Q	Herpes_capsid	e6b43Q1	A: alpha bundles	X: Smallest capsid protein (SCP) (From Topology)	H: Smallest capsid protein (SCP) (From Topology)	T: Smallest capsid protein (SCP)	F: Herpes_capsid	ECOD (1.6)
P	Herpes_capsid	e6b43P1	A: alpha bundles	X: Smallest capsid protein (SCP) (From Topology)	H: Smallest capsid protein (SCP) (From Topology)	T: Smallest capsid protein (SCP)	F: Herpes_capsid	ECOD (1.6)
L	Herpes_capsid	e6b43L1	A: alpha bundles	X: Smallest capsid protein (SCP) (From Topology)	H: Smallest capsid protein (SCP) (From Topology)	T: Smallest capsid protein (SCP)	F: Herpes_capsid	ECOD (1.6)
K	Herpes_capsid	e6b43K1	A: alpha bundles	X: Smallest capsid protein (SCP) (From Topology)	H: Smallest capsid protein (SCP) (From Topology)	T: Smallest capsid protein (SCP)	F: Herpes_capsid	ECOD (1.6)
J	Herpes_capsid	e6b43J1	A: alpha bundles	X: Smallest capsid protein (SCP) (From Topology)	H: Smallest capsid protein (SCP) (From Topology)	T: Smallest capsid protein (SCP)	F: Herpes_capsid	ECOD (1.6)
I	Herpes_capsid	e6b43I1	A: alpha bundles	X: Smallest capsid protein (SCP) (From Topology)	H: Smallest capsid protein (SCP) (From Topology)	T: Smallest capsid protein (SCP)	F: Herpes_capsid	ECOD (1.6)
H	Herpes_capsid	e6b43H1	A: alpha bundles	X: Smallest capsid protein (SCP) (From Topology)	H: Smallest capsid protein (SCP) (From Topology)	T: Smallest capsid protein (SCP)	F: Herpes_capsid	ECOD (1.6)
G	Herpes_capsid	e6b43G1	A: alpha bundles	X: Smallest capsid protein (SCP) (From Topology)	H: Smallest capsid protein (SCP) (From Topology)	T: Smallest capsid protein (SCP)	F: Herpes_capsid	ECOD (1.6)
DA [auth 3]	Herpes_capsid	e6b4331	A: alpha bundles	X: Smallest capsid protein (SCP) (From Topology)	H: Smallest capsid protein (SCP) (From Topology)	T: Smallest capsid protein (SCP)	F: Herpes_capsid	ECOD (1.6)
CA [auth 2]	Herpes_capsid	e6b4321	A: alpha bundles	X: Smallest capsid protein (SCP) (From Topology)	H: Smallest capsid protein (SCP) (From Topology)	T: Smallest capsid protein (SCP)	F: Herpes_capsid	ECOD (1.6)
BA [auth 1]	Herpes_capsid	e6b4311	A: alpha bundles	X: Smallest capsid protein (SCP) (From Topology)	H: Smallest capsid protein (SCP) (From Topology)	T: Smallest capsid protein (SCP)	F: Herpes_capsid	ECOD (1.6)
AA [auth 0]	Herpes_capsid	e6b4301	A: alpha bundles	X: Smallest capsid protein (SCP) (From Topology)	H: Smallest capsid protein (SCP) (From Topology)	T: Smallest capsid protein (SCP)	F: Herpes_capsid	ECOD (1.6)
EA [auth 4]	Herpes_MCP	e6b4341	A: a+b complex topology	X: Major capsid protein VP5 (From Topology)	H: Major capsid protein VP5 (From Topology)	T: Major capsid protein VP5	F: Herpes_MCP	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
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]	PF01802	Herpesvirus VP23 like capsid protein (Herpes_V23)	Herpesvirus VP23 like capsid protein	-	Family
FA [auth 5], IA [auth 8], LA [auth b], OA [auth e], RA [auth h]	PF03327	Herpesvirus capsid shell protein VP19C (Herpes_VP19C)	Herpesvirus capsid shell protein VP19C	-	Family
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	PF01802	Herpesvirus VP23 like capsid protein (Herpes_V23)	Herpesvirus VP23 like capsid protein	-	Family
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	PF03327	Herpesvirus capsid shell protein VP19C (Herpes_VP19C)	Herpesvirus capsid shell protein VP19C	-	Family
A, B, C, D, E, A, B, C, D, E, EA [auth 4], F, M, N, O, S, T, U, V, W, X	PF01802	Herpesvirus VP23 like capsid protein (Herpes_V23)	Herpesvirus VP23 like 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	PF03122	Herpes virus major capsid protein (Herpes_MCP)	Herpes virus 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	PF03327	Herpesvirus capsid shell protein VP19C (Herpes_VP19C)	Herpesvirus capsid shell protein VP19C	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular 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 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 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
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
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	-	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 viral capsid icosahedral viral capsid virion component T=16 icosahedral viral capsid

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
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
FA [auth 5], IA [auth 8], LA [auth b], OA [auth e], RA [auth h]	IPR004999	Herpesvirus capsid shell protein 1	Family
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
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

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.