The Atomic Structure of Rice dwarf Virus (RDV)
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A | SCOP2 Family | Phytoreovirus core | 8029375 | 4001662 | SCOP2 (2022-06-29) |
A | SCOP2 Superfamily | Reovirus inner layer core protein p3 | 8041754 | 3001935 | SCOP2 (2022-06-29) |
B | SCOP2B Superfamily | Reovirus inner layer core protein p3 | 8041754 | 3001935 | SCOP2B (2022-06-29) |
C [auth P] | SCOP2B Superfamily | Top domain of rotavirus capsid protein-like | 8041756 | 3002477 | SCOP2B (2022-06-29) |
C [auth P] | SCOP2B Superfamily | A virus capsid protein alpha-helical domain | 8041755 | 3001154 | SCOP2B (2022-06-29) |
D [auth C] | SCOP2 Family | Phytoreovirus capsid | 8029376 | 4000733 | SCOP2 (2022-06-29) |
D [auth C] | SCOP2 Family | Top domain of rotavirus capsid protein-like | 8029377 | 4002501 | SCOP2 (2022-06-29) |
D [auth C] | SCOP2 Superfamily | A virus capsid protein alpha-helical domain | 8041755 | 3001154 | SCOP2 (2022-06-29) |
D [auth C] | SCOP2 Superfamily | Top domain of rotavirus capsid protein-like | 8041756 | 3002477 | SCOP2 (2022-06-29) |
E [auth D] | SCOP2B Superfamily | A virus capsid protein alpha-helical domain | 8041755 | 3001154 | SCOP2B (2022-06-29) |
E [auth D] | SCOP2B Superfamily | Top domain of rotavirus capsid protein-like | 8041756 | 3002477 | SCOP2B (2022-06-29) |
F [auth Q] | SCOP2B Superfamily | A virus capsid protein alpha-helical domain | 8041755 | 3001154 | SCOP2B (2022-06-29) |
F [auth Q] | SCOP2B Superfamily | Top domain of rotavirus capsid protein-like | 8041756 | 3002477 | SCOP2B (2022-06-29) |
G [auth E] | SCOP2B Superfamily | Top domain of rotavirus capsid protein-like | 8041756 | 3002477 | SCOP2B (2022-06-29) |
G [auth E] | SCOP2B Superfamily | A virus capsid protein alpha-helical domain | 8041755 | 3001154 | SCOP2B (2022-06-29) |
H [auth F] | SCOP2B Superfamily | A virus capsid protein alpha-helical domain | 8041755 | 3001154 | SCOP2B (2022-06-29) |
H [auth F] | SCOP2B Superfamily | Top domain of rotavirus capsid protein-like | 8041756 | 3002477 | SCOP2B (2022-06-29) |
I [auth R] | SCOP2B Superfamily | Top domain of rotavirus capsid protein-like | 8041756 | 3002477 | SCOP2B (2022-06-29) |
I [auth R] | SCOP2B Superfamily | A virus capsid protein alpha-helical domain | 8041755 | 3001154 | SCOP2B (2022-06-29) |
J [auth G] | SCOP2B Superfamily | A virus capsid protein alpha-helical domain | 8041755 | 3001154 | SCOP2B (2022-06-29) |
J [auth G] | SCOP2B Superfamily | Top domain of rotavirus capsid protein-like | 8041756 | 3002477 | SCOP2B (2022-06-29) |
K [auth H] | SCOP2B Superfamily | A virus capsid protein alpha-helical domain | 8041755 | 3001154 | SCOP2B (2022-06-29) |
K [auth H] | SCOP2B Superfamily | Top domain of rotavirus capsid protein-like | 8041756 | 3002477 | SCOP2B (2022-06-29) |
L [auth S] | SCOP2B Superfamily | A virus capsid protein alpha-helical domain | 8041755 | 3001154 | SCOP2B (2022-06-29) |
L [auth S] | SCOP2B Superfamily | Top domain of rotavirus capsid protein-like | 8041756 | 3002477 | SCOP2B (2022-06-29) |
M [auth I] | SCOP2B Superfamily | A virus capsid protein alpha-helical domain | 8041755 | 3001154 | SCOP2B (2022-06-29) |
M [auth I] | SCOP2B Superfamily | Top domain of rotavirus capsid protein-like | 8041756 | 3002477 | SCOP2B (2022-06-29) |
N [auth J] | SCOP2B Superfamily | A virus capsid protein alpha-helical domain | 8041755 | 3001154 | SCOP2B (2022-06-29) |
N [auth J] | SCOP2B Superfamily | Top domain of rotavirus capsid protein-like | 8041756 | 3002477 | SCOP2B (2022-06-29) |
O [auth T] | SCOP2B Superfamily | Top domain of rotavirus capsid protein-like | 8041756 | 3002477 | SCOP2B (2022-06-29) |
O [auth T] | SCOP2B Superfamily | A virus capsid protein alpha-helical domain | 8041755 | 3001154 | 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) |
---|---|---|---|---|---|---|---|---|
A | RDV-p3 | e1uf2A1 | 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: RDV-p3 | ECOD (1.6) |
B | RDV-p3 | e1uf2B1 | 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: RDV-p3 | ECOD (1.6) |
C [auth P] | Phytoreo_P8_2nd | e1uf2P1 | A: beta sandwiches | X: jelly-roll | H: Viral protein domain (From Topology) | T: Viral protein domain | F: Phytoreo_P8_2nd | ECOD (1.6) |
C [auth P] | Phytoreo_P8_1st | e1uf2P2 | A: alpha bundles | X: A virus capsid protein alpha-helical domain (From Topology) | H: A virus capsid protein alpha-helical domain (From Topology) | T: A virus capsid protein alpha-helical domain | F: Phytoreo_P8_1st | ECOD (1.6) |
D [auth C] | Phytoreo_P8_2nd | e1uf2C1 | A: beta sandwiches | X: jelly-roll | H: Viral protein domain (From Topology) | T: Viral protein domain | F: Phytoreo_P8_2nd | ECOD (1.6) |
D [auth C] | Phytoreo_P8_1st | e1uf2C2 | A: alpha bundles | X: A virus capsid protein alpha-helical domain (From Topology) | H: A virus capsid protein alpha-helical domain (From Topology) | T: A virus capsid protein alpha-helical domain | F: Phytoreo_P8_1st | ECOD (1.6) |
E [auth D] | Phytoreo_P8_2nd | e1uf2D1 | A: beta sandwiches | X: jelly-roll | H: Viral protein domain (From Topology) | T: Viral protein domain | F: Phytoreo_P8_2nd | ECOD (1.6) |
E [auth D] | Phytoreo_P8_1st | e1uf2D2 | A: alpha bundles | X: A virus capsid protein alpha-helical domain (From Topology) | H: A virus capsid protein alpha-helical domain (From Topology) | T: A virus capsid protein alpha-helical domain | F: Phytoreo_P8_1st | ECOD (1.6) |
F [auth Q] | Phytoreo_P8_2nd | e1uf2Q1 | A: beta sandwiches | X: jelly-roll | H: Viral protein domain (From Topology) | T: Viral protein domain | F: Phytoreo_P8_2nd | ECOD (1.6) |
F [auth Q] | Phytoreo_P8_1st | e1uf2Q2 | A: alpha bundles | X: A virus capsid protein alpha-helical domain (From Topology) | H: A virus capsid protein alpha-helical domain (From Topology) | T: A virus capsid protein alpha-helical domain | F: Phytoreo_P8_1st | ECOD (1.6) |
G [auth E] | Phytoreo_P8_2nd | e1uf2E1 | A: beta sandwiches | X: jelly-roll | H: Viral protein domain (From Topology) | T: Viral protein domain | F: Phytoreo_P8_2nd | ECOD (1.6) |
G [auth E] | Phytoreo_P8_1st | e1uf2E2 | A: alpha bundles | X: A virus capsid protein alpha-helical domain (From Topology) | H: A virus capsid protein alpha-helical domain (From Topology) | T: A virus capsid protein alpha-helical domain | F: Phytoreo_P8_1st | ECOD (1.6) |
H [auth F] | Phytoreo_P8_2nd | e1uf2F1 | A: beta sandwiches | X: jelly-roll | H: Viral protein domain (From Topology) | T: Viral protein domain | F: Phytoreo_P8_2nd | ECOD (1.6) |
H [auth F] | Phytoreo_P8_1st | e1uf2F2 | A: alpha bundles | X: A virus capsid protein alpha-helical domain (From Topology) | H: A virus capsid protein alpha-helical domain (From Topology) | T: A virus capsid protein alpha-helical domain | F: Phytoreo_P8_1st | ECOD (1.6) |
I [auth R] | Phytoreo_P8_2nd | e1uf2R1 | A: beta sandwiches | X: jelly-roll | H: Viral protein domain (From Topology) | T: Viral protein domain | F: Phytoreo_P8_2nd | ECOD (1.6) |
I [auth R] | Phytoreo_P8_1st | e1uf2R2 | A: alpha bundles | X: A virus capsid protein alpha-helical domain (From Topology) | H: A virus capsid protein alpha-helical domain (From Topology) | T: A virus capsid protein alpha-helical domain | F: Phytoreo_P8_1st | ECOD (1.6) |
J [auth G] | Phytoreo_P8_2nd | e1uf2G1 | A: beta sandwiches | X: jelly-roll | H: Viral protein domain (From Topology) | T: Viral protein domain | F: Phytoreo_P8_2nd | ECOD (1.6) |
J [auth G] | Phytoreo_P8_1st | e1uf2G2 | A: alpha bundles | X: A virus capsid protein alpha-helical domain (From Topology) | H: A virus capsid protein alpha-helical domain (From Topology) | T: A virus capsid protein alpha-helical domain | F: Phytoreo_P8_1st | ECOD (1.6) |
K [auth H] | Phytoreo_P8_2nd | e1uf2H1 | A: beta sandwiches | X: jelly-roll | H: Viral protein domain (From Topology) | T: Viral protein domain | F: Phytoreo_P8_2nd | ECOD (1.6) |
K [auth H] | Phytoreo_P8_1st | e1uf2H2 | A: alpha bundles | X: A virus capsid protein alpha-helical domain (From Topology) | H: A virus capsid protein alpha-helical domain (From Topology) | T: A virus capsid protein alpha-helical domain | F: Phytoreo_P8_1st | ECOD (1.6) |
L [auth S] | Phytoreo_P8_2nd | e1uf2S1 | A: beta sandwiches | X: jelly-roll | H: Viral protein domain (From Topology) | T: Viral protein domain | F: Phytoreo_P8_2nd | ECOD (1.6) |
L [auth S] | Phytoreo_P8_1st | e1uf2S2 | A: alpha bundles | X: A virus capsid protein alpha-helical domain (From Topology) | H: A virus capsid protein alpha-helical domain (From Topology) | T: A virus capsid protein alpha-helical domain | F: Phytoreo_P8_1st | ECOD (1.6) |
M [auth I] | Phytoreo_P8_2nd | e1uf2I1 | A: beta sandwiches | X: jelly-roll | H: Viral protein domain (From Topology) | T: Viral protein domain | F: Phytoreo_P8_2nd | ECOD (1.6) |
M [auth I] | Phytoreo_P8_1st | e1uf2I2 | A: alpha bundles | X: A virus capsid protein alpha-helical domain (From Topology) | H: A virus capsid protein alpha-helical domain (From Topology) | T: A virus capsid protein alpha-helical domain | F: Phytoreo_P8_1st | ECOD (1.6) |
N [auth J] | Phytoreo_P8_2nd | e1uf2J1 | A: beta sandwiches | X: jelly-roll | H: Viral protein domain (From Topology) | T: Viral protein domain | F: Phytoreo_P8_2nd | ECOD (1.6) |
N [auth J] | Phytoreo_P8_1st | e1uf2J2 | A: alpha bundles | X: A virus capsid protein alpha-helical domain (From Topology) | H: A virus capsid protein alpha-helical domain (From Topology) | T: A virus capsid protein alpha-helical domain | F: Phytoreo_P8_1st | ECOD (1.6) |
O [auth T] | Phytoreo_P8_2nd | e1uf2T1 | A: beta sandwiches | X: jelly-roll | H: Viral protein domain (From Topology) | T: Viral protein domain | F: Phytoreo_P8_2nd | ECOD (1.6) |
O [auth T] | Phytoreo_P8_1st | e1uf2T2 | A: alpha bundles | X: A virus capsid protein alpha-helical domain (From Topology) | H: A virus capsid protein alpha-helical domain (From Topology) | T: A virus capsid protein alpha-helical domain | F: Phytoreo_P8_1st | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
C [auth P] | 2.60.120.170 | Mainly Beta | Sandwich | Jelly Rolls | CATH (4.3.0) | |
D [auth C] | 2.60.120.170 | Mainly Beta | Sandwich | Jelly Rolls | CATH (4.3.0) | |
E [auth D] | 2.60.120.170 | Mainly Beta | Sandwich | Jelly Rolls | CATH (4.3.0) | |
F [auth Q] | 2.60.120.170 | Mainly Beta | Sandwich | Jelly Rolls | CATH (4.3.0) | |
G [auth E] | 2.60.120.170 | Mainly Beta | Sandwich | Jelly Rolls | CATH (4.3.0) | |
H [auth F] | 2.60.120.170 | Mainly Beta | Sandwich | Jelly Rolls | CATH (4.3.0) | |
I [auth R] | 2.60.120.170 | Mainly Beta | Sandwich | Jelly Rolls | CATH (4.3.0) | |
J [auth G] | 2.60.120.170 | Mainly Beta | Sandwich | Jelly Rolls | CATH (4.3.0) | |
K [auth H] | 2.60.120.170 | Mainly Beta | Sandwich | Jelly Rolls | CATH (4.3.0) | |
L [auth S] | 2.60.120.170 | Mainly Beta | Sandwich | Jelly Rolls | CATH (4.3.0) | |
M [auth I] | 2.60.120.170 | Mainly Beta | Sandwich | Jelly Rolls | CATH (4.3.0) | |
N [auth J] | 2.60.120.170 | Mainly Beta | Sandwich | Jelly Rolls | CATH (4.3.0) | |
O [auth T] | 2.60.120.170 | Mainly Beta | Sandwich | Jelly Rolls | CATH (4.3.0) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF09231 | Rice dwarf virus p3 (RDV-p3) | Rice dwarf virus p3 | - | Family | |
PF07124 | Phytoreovirus outer capsid protein P8 (Phytoreo_P8) | Phytoreovirus outer capsid protein P8 | - | Family |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
Chains | Polymer | Molecular Function | Biological Process | Cellular Component |
---|---|---|---|---|
P [auth K] | Structural protein P7 | - | ||
Core protein P3 | - | |||
Outer capsid protein P8 |
|
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
P [auth K] | IPR009873 | Phytoreovirus S7 | Family |
IPR015312 | Inner layer core protein VP3, Phytoreovirus | Family | |
IPR016029 | Inner layer core protein VP3, Reovirus | Homologous Superfamily | |
IPR008935 | Virus capsid protein, alpha-helical | Homologous Superfamily | |
IPR008980 | Viral capsid/haemagglutinin protein | Homologous Superfamily | |
IPR009807 | Phytoreovirus outer capsid P8 | Family |