4G0J | pdb_00004g0j

Crystallographic Analysis of Rotavirus NSP2-RNA Complex Reveals Specific Recognition of 5'-GG Sequence for RTPase activity

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
J	SCOP2B Superfamily	Rotavirus NSP2 fragment, C-terminal domain	8036610	3001351	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Rotavirus NSP2 fragment, N-terminal domain	8036611	3001787	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Rotavirus NSP2 fragment, N-terminal domain	8036611	3001787	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Rotavirus NSP2 fragment, C-terminal domain	8036610	3001351	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Rotavirus NSP2 fragment, C-terminal domain	8036610	3001351	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Rotavirus NSP2 fragment, N-terminal domain	8036611	3001787	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Rotavirus NSP2 fragment, C-terminal domain	8036610	3001351	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Rotavirus NSP2 fragment, N-terminal domain	8036611	3001787	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Rotavirus NSP2 fragment, C-terminal domain	8036610	3001351	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Rotavirus NSP2 fragment, N-terminal domain	8036611	3001787	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Rotavirus NSP2 fragment, C-terminal domain	8036610	3001351	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Rotavirus NSP2 fragment, N-terminal domain	8036611	3001787	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Rotavirus NSP2 fragment, C-terminal domain	8036610	3001351	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Rotavirus NSP2 fragment, N-terminal domain	8036611	3001787	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Rotavirus NSP2 fragment, C-terminal domain	8036610	3001351	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Rotavirus NSP2 fragment, N-terminal domain	8036611	3001787	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Rotavirus NSP2 fragment, N-terminal domain	8036611	3001787	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Rotavirus NSP2 fragment, C-terminal domain	8036610	3001351	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Rotavirus NSP2 fragment, C-terminal domain	8036610	3001351	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Rotavirus NSP2 fragment, N-terminal domain	8036611	3001787	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)
J	Rota_NS35_C	e4g0jJ1	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: Rota_NS35_C	ECOD (1.6)
J	Rota_NS35_N	e4g0jJ2	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: Rota_NS35_N	ECOD (1.6)
I	Rota_NS35_C	e4g0jI1	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: Rota_NS35_C	ECOD (1.6)
I	Rota_NS35_N	e4g0jI2	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: Rota_NS35_N	ECOD (1.6)
H	Rota_NS35_C	e4g0jH1	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: Rota_NS35_C	ECOD (1.6)
H	Rota_NS35_N	e4g0jH2	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: Rota_NS35_N	ECOD (1.6)
G	Rota_NS35_C	e4g0jG1	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: Rota_NS35_C	ECOD (1.6)
G	Rota_NS35_N	e4g0jG2	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: Rota_NS35_N	ECOD (1.6)
F	Rota_NS35_C	e4g0jF1	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: Rota_NS35_C	ECOD (1.6)
F	Rota_NS35_N	e4g0jF2	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: Rota_NS35_N	ECOD (1.6)
E	Rota_NS35_C	e4g0jE1	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: Rota_NS35_C	ECOD (1.6)
E	Rota_NS35_N	e4g0jE2	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: Rota_NS35_N	ECOD (1.6)
D	Rota_NS35_C	e4g0jD1	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: Rota_NS35_C	ECOD (1.6)
D	Rota_NS35_N	e4g0jD2	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: Rota_NS35_N	ECOD (1.6)
C	Rota_NS35_C	e4g0jC1	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: Rota_NS35_C	ECOD (1.6)
C	Rota_NS35_N	e4g0jC2	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: Rota_NS35_N	ECOD (1.6)
B	Rota_NS35_C	e4g0jB1	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: Rota_NS35_C	ECOD (1.6)
B	Rota_NS35_N	e4g0jB2	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: Rota_NS35_N	ECOD (1.6)
A	Rota_NS35_C	e4g0jA1	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: Rota_NS35_C	ECOD (1.6)
A	Rota_NS35_N	e4g0jA2	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: Rota_NS35_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
J	3.90.1400.10	Alpha Beta	Alpha-Beta Complex	Rotavirus NSP2 fragment, N-terminal domain	Rotavirus NSP2 fragment, N-terminal domain	CATH (4.3.0)
J	3.30.428.20	Alpha Beta	2-Layer Sandwich	HIT family, subunit A	Rotavirus NSP2 fragment, C-terminal domain	CATH (4.3.0)
I	3.90.1400.10	Alpha Beta	Alpha-Beta Complex	Rotavirus NSP2 fragment, N-terminal domain	Rotavirus NSP2 fragment, N-terminal domain	CATH (4.3.0)
I	3.30.428.20	Alpha Beta	2-Layer Sandwich	HIT family, subunit A	Rotavirus NSP2 fragment, C-terminal domain	CATH (4.3.0)
H	3.90.1400.10	Alpha Beta	Alpha-Beta Complex	Rotavirus NSP2 fragment, N-terminal domain	Rotavirus NSP2 fragment, N-terminal domain	CATH (4.3.0)
H	3.30.428.20	Alpha Beta	2-Layer Sandwich	HIT family, subunit A	Rotavirus NSP2 fragment, C-terminal domain	CATH (4.3.0)
G	3.90.1400.10	Alpha Beta	Alpha-Beta Complex	Rotavirus NSP2 fragment, N-terminal domain	Rotavirus NSP2 fragment, N-terminal domain	CATH (4.3.0)
G	3.30.428.20	Alpha Beta	2-Layer Sandwich	HIT family, subunit A	Rotavirus NSP2 fragment, C-terminal domain	CATH (4.3.0)
F	3.90.1400.10	Alpha Beta	Alpha-Beta Complex	Rotavirus NSP2 fragment, N-terminal domain	Rotavirus NSP2 fragment, N-terminal domain	CATH (4.3.0)
F	3.30.428.20	Alpha Beta	2-Layer Sandwich	HIT family, subunit A	Rotavirus NSP2 fragment, C-terminal domain	CATH (4.3.0)
E	3.90.1400.10	Alpha Beta	Alpha-Beta Complex	Rotavirus NSP2 fragment, N-terminal domain	Rotavirus NSP2 fragment, N-terminal domain	CATH (4.3.0)
E	3.30.428.20	Alpha Beta	2-Layer Sandwich	HIT family, subunit A	Rotavirus NSP2 fragment, C-terminal domain	CATH (4.3.0)
D	3.90.1400.10	Alpha Beta	Alpha-Beta Complex	Rotavirus NSP2 fragment, N-terminal domain	Rotavirus NSP2 fragment, N-terminal domain	CATH (4.3.0)
D	3.30.428.20	Alpha Beta	2-Layer Sandwich	HIT family, subunit A	Rotavirus NSP2 fragment, C-terminal domain	CATH (4.3.0)
C	3.90.1400.10	Alpha Beta	Alpha-Beta Complex	Rotavirus NSP2 fragment, N-terminal domain	Rotavirus NSP2 fragment, N-terminal domain	CATH (4.3.0)
C	3.30.428.20	Alpha Beta	2-Layer Sandwich	HIT family, subunit A	Rotavirus NSP2 fragment, C-terminal domain	CATH (4.3.0)
B	3.90.1400.10	Alpha Beta	Alpha-Beta Complex	Rotavirus NSP2 fragment, N-terminal domain	Rotavirus NSP2 fragment, N-terminal domain	CATH (4.3.0)
B	3.30.428.20	Alpha Beta	2-Layer Sandwich	HIT family, subunit A	Rotavirus NSP2 fragment, C-terminal domain	CATH (4.3.0)
A	3.90.1400.10	Alpha Beta	Alpha-Beta Complex	Rotavirus NSP2 fragment, N-terminal domain	Rotavirus NSP2 fragment, N-terminal domain	CATH (4.3.0)
A	3.30.428.20	Alpha Beta	2-Layer Sandwich	HIT family, subunit A	Rotavirus NSP2 fragment, C-terminal domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	PF21067	Rotavirus non-structural protein 35, N-terminal (Rota_NS35_N)	Rotavirus non-structural protein 35, N-terminal	Rotavirus non-structural protein 35 (NS35, also known as NSP2) is a basic protein which possesses RNA-binding, and helix-destabilising activities in addition to nucleoside and 5' RNA triphosphatase (NTPase/RTPase) and nucleoside-diphosphate (NDP) kin ...	Rotavirus non-structural protein 35 (NS35, also known as NSP2) is a basic protein which possesses RNA-binding, and helix-destabilising activities in addition to nucleoside and 5' RNA triphosphatase (NTPase/RTPase) and nucleoside-diphosphate (NDP) kinase-like activities [2,3,4]. NS35 forms a functional octamer which is essential for genome replication and formation of viroplasms [1-4]. This is the N-terminal domain, which contains basic residues, that in addition to the basic residues in the C-terminal helix, are important for sequence-independent RNA binding of NS35 [4]. This domain also has conserved cysteine residues which form disulfide that might be relevant for NS35 activity [3].	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	PF02509	Rotavirus non-structural protein 35, C-terminal (Rota_NS35_C)	Rotavirus non-structural protein 35, C-terminal	Rotavirus non-structural protein 35 (NS35, also known as NSP2) is a basic protein which possesses RNA-binding and helix-destabilising activities in addition to nucleoside and 5' RNA triphosphatase (NTPase/RTPase) and nucleoside-diphosphate (NDP) kina ...	Rotavirus non-structural protein 35 (NS35, also known as NSP2) is a basic protein which possesses RNA-binding and helix-destabilising activities in addition to nucleoside and 5' RNA triphosphatase (NTPase/RTPase) and nucleoside-diphosphate (NDP) kinase-like activities [2,3,4]. NS35 forms a functional octamer which is essential for genome replication and formation of viroplasms [1-4]. This is the C-terminal domain, which has nucleotide triphosphatase (NTPase) and nucleoside diphosphate kinase (NDP kinase) activities, required for dsRNA synthesis. Additionally, basic residues in a C-terminal helix of this domain contributes to sequence-independent RNA binding of NSP2 [3,4].	Domain

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	Non-structural protein 2	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding pyrophosphatase activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity RNA binding nucleic acid binding nucleobase-containing compound kinase activity kinase activity transferase activity phosphotransferase activity, phosphate group as acceptor nucleoside diphosphate kinase activity transferase activity, transferring phosphorus-containing groups cation binding metal ion binding	viral genome replication viral process viral life cycle	host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part

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	IPR024068	Rotavirus NSP2, N-terminal	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR003668	Rotavirus non-structural protein 2	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR048573	Rotavirus non-structural protein 35, N-terminal domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR048306	Rotavirus non-structural protein 35, C-terminal domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR024076	Rotavirus NSP2, C-terminal	Homologous Superfamily