3K1Q

Backbone model of an aquareovirus virion by cryo-electron microscopy and bioinformatics

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF06016	e3k1qA16	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF06016	ECOD (1.6)
A	PF21060	e3k1qA15	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF21060	ECOD (1.6)
A	PF21061	e3k1qA13	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF21061	ECOD (1.6)
A	PF21062,PF21065	e3k1qA11	A: a+b two layers	X: ferredoxin-like domain in VP1 (From Topology)	H: ferredoxin-like domain in VP1 (From Topology)	T: ferredoxin-like domain in VP1	F: PF21062,PF21065	ECOD (1.6)
A	PF21063	e3k1qA9	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: PF21063	ECOD (1.6)
A	PF21064	e3k1qA14	A: a+b complex topology	X: Rotavirus NSP2 fragment, N-terminal domain (From Topology)	H: Rotavirus NSP2 fragment, N-terminal domain (From Topology)	T: Rotavirus NSP2 fragment, N-terminal domain	F: PF21064	ECOD (1.6)
A	PF21065	e3k1qA12	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: PF21065	ECOD (1.6)
A	PF21066	e3k1qA10	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: PF21066	ECOD (1.6)
B	PF22033	e3k1qB2	A: a+b complex topology	X: Inner layer core protein p3-related (From Topology)	H: Inner layer core protein p3-related (From Topology)	T: Inner layer core protein p3-related	F: PF22033	ECOD (1.6)
C	PF22033	e3k1qC1	A: a+b complex topology	X: Inner layer core protein p3-related (From Topology)	H: Inner layer core protein p3-related (From Topology)	T: Inner layer core protein p3-related	F: PF22033	ECOD (1.6)
C	PF13912	e3k1qC2	A: few secondary structure elements	X: beta-beta-alpha zinc fingers	H: beta-beta-alpha zinc fingers (From Topology)	T: beta-beta-alpha zinc fingers	F: PF13912	ECOD (1.6)
D	PF03084	e3k1qD1	A: alpha complex topology	X: Core protein VP6 (From Topology)	H: Core protein VP6 (From Topology)	T: Core protein VP6	F: PF03084	ECOD (1.6)
E	PF03084	e3k1qE1	A: alpha complex topology	X: Core protein VP6 (From Topology)	H: Core protein VP6 (From Topology)	T: Core protein VP6	F: PF03084	ECOD (1.6)
F	PF17071	e3k1qF1	A: a+b complex topology	X: Outer capsid protein sigma 3-related (From Topology)	H: Outer capsid protein sigma 3-related (From Topology)	T: Outer capsid protein sigma 3-related	F: PF17071	ECOD (1.6)
G	PF17071	e3k1qG1	A: a+b complex topology	X: Outer capsid protein sigma 3-related (From Topology)	H: Outer capsid protein sigma 3-related (From Topology)	T: Outer capsid protein sigma 3-related	F: PF17071	ECOD (1.6)
H	PF17071	e3k1qH1	A: a+b complex topology	X: Outer capsid protein sigma 3-related (From Topology)	H: Outer capsid protein sigma 3-related (From Topology)	T: Outer capsid protein sigma 3-related	F: PF17071	ECOD (1.6)
L	PF17071	e3k1qL1	A: a+b complex topology	X: Outer capsid protein sigma 3-related (From Topology)	H: Outer capsid protein sigma 3-related (From Topology)	T: Outer capsid protein sigma 3-related	F: PF17071	ECOD (1.6)
M	PF17071	e3k1qM1	A: a+b complex topology	X: Outer capsid protein sigma 3-related (From Topology)	H: Outer capsid protein sigma 3-related (From Topology)	T: Outer capsid protein sigma 3-related	F: PF17071	ECOD (1.6)
N	PF17071	e3k1qN1	A: a+b complex topology	X: Outer capsid protein sigma 3-related (From Topology)	H: Outer capsid protein sigma 3-related (From Topology)	T: Outer capsid protein sigma 3-related	F: PF17071	ECOD (1.6)
R	PF17071	e3k1qR1	A: a+b complex topology	X: Outer capsid protein sigma 3-related (From Topology)	H: Outer capsid protein sigma 3-related (From Topology)	T: Outer capsid protein sigma 3-related	F: PF17071	ECOD (1.6)
S	PF17071	e3k1qS1	A: a+b complex topology	X: Outer capsid protein sigma 3-related (From Topology)	H: Outer capsid protein sigma 3-related (From Topology)	T: Outer capsid protein sigma 3-related	F: PF17071	ECOD (1.6)
T	PF17071	e3k1qT1	A: a+b complex topology	X: Outer capsid protein sigma 3-related (From Topology)	H: Outer capsid protein sigma 3-related (From Topology)	T: Outer capsid protein sigma 3-related	F: PF17071	ECOD (1.6)
Y	PF17071	e3k1qY1	A: a+b complex topology	X: Outer capsid protein sigma 3-related (From Topology)	H: Outer capsid protein sigma 3-related (From Topology)	T: Outer capsid protein sigma 3-related	F: PF17071	ECOD (1.6)
I	PF05993	e3k1qI2	A: beta sandwiches	X: jelly-roll	H: Jelly-roll domain in membrane penetration protein mu1 (From Topology)	T: Jelly-roll domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
I	PF05993	e3k1qI3	A: alpha arrays	X: Alpha-helical domain in membrane penetration protein mu1 (From Topology)	H: Alpha-helical domain in membrane penetration protein mu1 (From Topology)	T: Alpha-helical domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
I	PF05993	e3k1qI1	A: a+b complex topology	X: a+b domain in membrane penetration protein mu1 (From Topology)	H: a+b domain in membrane penetration protein mu1 (From Topology)	T: a+b domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
J	PF05993	e3k1qJ2	A: beta sandwiches	X: jelly-roll	H: Jelly-roll domain in membrane penetration protein mu1 (From Topology)	T: Jelly-roll domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
J	PF05993	e3k1qJ3	A: alpha arrays	X: Alpha-helical domain in membrane penetration protein mu1 (From Topology)	H: Alpha-helical domain in membrane penetration protein mu1 (From Topology)	T: Alpha-helical domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
J	PF05993	e3k1qJ1	A: a+b complex topology	X: a+b domain in membrane penetration protein mu1 (From Topology)	H: a+b domain in membrane penetration protein mu1 (From Topology)	T: a+b domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
K	PF05993	e3k1qK2	A: beta sandwiches	X: jelly-roll	H: Jelly-roll domain in membrane penetration protein mu1 (From Topology)	T: Jelly-roll domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
K	PF05993	e3k1qK3	A: alpha arrays	X: Alpha-helical domain in membrane penetration protein mu1 (From Topology)	H: Alpha-helical domain in membrane penetration protein mu1 (From Topology)	T: Alpha-helical domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
K	PF05993	e3k1qK1	A: a+b complex topology	X: a+b domain in membrane penetration protein mu1 (From Topology)	H: a+b domain in membrane penetration protein mu1 (From Topology)	T: a+b domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
O	PF05993	e3k1qO2	A: beta sandwiches	X: jelly-roll	H: Jelly-roll domain in membrane penetration protein mu1 (From Topology)	T: Jelly-roll domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
O	PF05993	e3k1qO3	A: alpha arrays	X: Alpha-helical domain in membrane penetration protein mu1 (From Topology)	H: Alpha-helical domain in membrane penetration protein mu1 (From Topology)	T: Alpha-helical domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
O	PF05993	e3k1qO1	A: a+b complex topology	X: a+b domain in membrane penetration protein mu1 (From Topology)	H: a+b domain in membrane penetration protein mu1 (From Topology)	T: a+b domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
P	PF05993	e3k1qP2	A: beta sandwiches	X: jelly-roll	H: Jelly-roll domain in membrane penetration protein mu1 (From Topology)	T: Jelly-roll domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
P	PF05993	e3k1qP3	A: alpha arrays	X: Alpha-helical domain in membrane penetration protein mu1 (From Topology)	H: Alpha-helical domain in membrane penetration protein mu1 (From Topology)	T: Alpha-helical domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
P	PF05993	e3k1qP1	A: a+b complex topology	X: a+b domain in membrane penetration protein mu1 (From Topology)	H: a+b domain in membrane penetration protein mu1 (From Topology)	T: a+b domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
Q	PF05993	e3k1qQ2	A: beta sandwiches	X: jelly-roll	H: Jelly-roll domain in membrane penetration protein mu1 (From Topology)	T: Jelly-roll domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
Q	PF05993	e3k1qQ3	A: alpha arrays	X: Alpha-helical domain in membrane penetration protein mu1 (From Topology)	H: Alpha-helical domain in membrane penetration protein mu1 (From Topology)	T: Alpha-helical domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
Q	PF05993	e3k1qQ1	A: a+b complex topology	X: a+b domain in membrane penetration protein mu1 (From Topology)	H: a+b domain in membrane penetration protein mu1 (From Topology)	T: a+b domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
U	PF05993	e3k1qU2	A: beta sandwiches	X: jelly-roll	H: Jelly-roll domain in membrane penetration protein mu1 (From Topology)	T: Jelly-roll domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
U	PF05993	e3k1qU3	A: alpha arrays	X: Alpha-helical domain in membrane penetration protein mu1 (From Topology)	H: Alpha-helical domain in membrane penetration protein mu1 (From Topology)	T: Alpha-helical domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
U	PF05993	e3k1qU1	A: a+b complex topology	X: a+b domain in membrane penetration protein mu1 (From Topology)	H: a+b domain in membrane penetration protein mu1 (From Topology)	T: a+b domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
V	PF05993	e3k1qV2	A: beta sandwiches	X: jelly-roll	H: Jelly-roll domain in membrane penetration protein mu1 (From Topology)	T: Jelly-roll domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
V	PF05993	e3k1qV3	A: alpha arrays	X: Alpha-helical domain in membrane penetration protein mu1 (From Topology)	H: Alpha-helical domain in membrane penetration protein mu1 (From Topology)	T: Alpha-helical domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
V	PF05993	e3k1qV1	A: a+b complex topology	X: a+b domain in membrane penetration protein mu1 (From Topology)	H: a+b domain in membrane penetration protein mu1 (From Topology)	T: a+b domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
W	PF05993	e3k1qW2	A: beta sandwiches	X: jelly-roll	H: Jelly-roll domain in membrane penetration protein mu1 (From Topology)	T: Jelly-roll domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
W	PF05993	e3k1qW3	A: alpha arrays	X: Alpha-helical domain in membrane penetration protein mu1 (From Topology)	H: Alpha-helical domain in membrane penetration protein mu1 (From Topology)	T: Alpha-helical domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
W	PF05993	e3k1qW1	A: a+b complex topology	X: a+b domain in membrane penetration protein mu1 (From Topology)	H: a+b domain in membrane penetration protein mu1 (From Topology)	T: a+b domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
X	PF05993	e3k1qX2	A: beta sandwiches	X: jelly-roll	H: Jelly-roll domain in membrane penetration protein mu1 (From Topology)	T: Jelly-roll domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
X	PF05993	e3k1qX3	A: alpha arrays	X: Alpha-helical domain in membrane penetration protein mu1 (From Topology)	H: Alpha-helical domain in membrane penetration protein mu1 (From Topology)	T: Alpha-helical domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)
X	PF05993	e3k1qX1	A: a+b complex topology	X: a+b domain in membrane penetration protein mu1 (From Topology)	H: a+b domain in membrane penetration protein mu1 (From Topology)	T: a+b domain in membrane penetration protein mu1	F: PF05993	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF21064	Reovirus core-spike protein lambda-2 (L2), N-terminal (Reovirus_L2_N)	Reovirus core-spike protein lambda-2 (L2), N-terminal	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight dom ...	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight domains with the most N-terminal domain at the base of the turret and the most C-terminal domain at the top [2]. This entry represents the N-terminal domain which adopts an alpha/beta topology.	Domain
A	PF21063	Reovirus core-spike protein lambda-2 (L2), GTase domain (Reovirus_L2_GTase)	Reovirus core-spike protein lambda-2 (L2), GTase domain	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight dom ...	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight domains with the most N-terminal domain at the base of the turret and the most C-terminal domain at the top. This entry represents the second one, which contains the nucleotide-binding histidine triad (HIT)-like motif from the GTase (guanylyltransferase) domain [2].	Domain
A	PF21066	Reovirus core-spike protein lambda-2 (L2), methyltransferase-2 (Reovirus_L2_MT2)	Reovirus core-spike protein lambda-2 (L2), methyltransferase-2	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight dom ...	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight domains with the most N-terminal domain at the base of the turret and the most C-terminal domain at the top. This entry represents the second methyltransferase domain (MT2), which catalyses the last reaction, 2'O-methylation [2].	Domain
A	PF21065	Reovirus core-spike protein lambda-2 (L2), methyltransferase-1 (Reovirus_L2_MT1)	Reovirus core-spike protein lambda-2 (L2), methyltransferase-1	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight dom ...	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight domains with the most N-terminal domain at the base of the turret and the most C-terminal domain at the top. This entry represents the methyltransferase-1 domain [2] which adds a methyl group to the N7 of the guanosine added by the GTase [2].	Domain
A	PF21060	Reovirus core-spike protein lambda-2 (L2), 6th domain (Reovirus_L2_6th)	Reovirus core-spike protein lambda-2 (L2), 6th domain	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight dom ...	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight domains with the most N-terminal domain at the base of the turret and the most C-terminal domain at the top. This entry represents the sixth domain which, together with the seventh and eighth (Pfam:PF06016) domains forms a three-domain flap at the top of the turret, that may serve as a gate to retard exit of the 5' terminus of the mRNA [2]. This domain has a Ig-like fold, resembling the V of an antibody light chain [2].	Domain
A	PF21062	Reovirus core-spike protein lambda-2 (L2), ferredoxin-like domain (Reovirus_L2_4th)	Reovirus core-spike protein lambda-2 (L2), ferredoxin-like domain	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight dom ...	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight domains with the most N-terminal domain at the base of the turret and the most C-terminal domain at the top. This entry represents the fourth domain, which adopts a ferredoxin-like fold consisting of four beta-strands protected by alpha-helices that probably functions as a structural support for the three enzyme domains (two methyltransferase and GTase domains) [2].	Domain
A	PF06016	Reovirus core-spike protein lambda-2 (L2), C-terminal (Reovirus_L2_8th)	Reovirus core-spike protein lambda-2 (L2), C-terminal	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight dom ...	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight domains with the most N-terminal domain at the base of the turret and the most C-terminal domain at the top. This entry represents the C-terminal (eighth) domain which, together with the sixth and seventh domains, forms a three-domain flap at the top of the turret, that may serve as a gate to retard exit of the 5' terminus of the mRNA [2]. This domain has a Ig-like, resembling a truncated V region of an antibody light chain.	Domain
A	PF21061	Reovirus core-spike protein lambda-2 (L2), 7th domain (Reovirus_L2_7th)	Reovirus core-spike protein lambda-2 (L2), 7th domain	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight dom ...	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight domains with the most N-terminal domain at the base of the turret and the most C-terminal domain at the top. This entry represents the seventh domain which, together with the sixth (Pfam:PF21060) and eighth (Pfam:PF06016) domains forms a three-domain flap at the top of the turret, that may serve as a gate to retard exit of the 5' terminus of the mRNA [2]. This domain has a Ig-like fold, resembling the C region of an antibody light chain [2].	Domain
C	PF13912	C2H2-type zinc finger (zf-C2H2_6)	C2H2-type zinc finger	-	Domain
D, E	PF03084	Reoviral Sigma1/Sigma2 family (Sigma_1_2)	Reoviral Sigma1/Sigma2 family	-	Family
F, G, H, L, M F, G, H, L, M, N, R, S, T, Y	PF17071	Outer capsid protein VP7 (Capsid_VP7)	Outer capsid protein VP7	-	Family
I, J, K, O, P I, J, K, O, P, Q, U, V, W, X	PF05993	Reovirus major virion structural protein Mu-1/Mu-1C (M2) (Reovirus_M2)	Reovirus major virion structural protein Mu-1/Mu-1C (M2)	-	Family

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.

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3K1Q

Backbone model of an aquareovirus virion by cryo-electron microscopy and bioinformatics

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Protein Family Annotation Pfam Database Homepage