2ED6 | pdb_00002ed6

Crystal Structure of Envelope Protein VP28 from White Spot Syndrome Virus (WSSV)

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
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: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
L	d2ed6l_	All beta proteins	WSSV envelope protein-like	WSSV envelope protein-like	WSSV envelope protein-like	Envelope protein VP28	(Shrimp white spot syndrome virus ) [TaxId: 92652 ],	SCOPe (2.08)
K	d2ed6k_	All beta proteins	WSSV envelope protein-like	WSSV envelope protein-like	WSSV envelope protein-like	Envelope protein VP28	(Shrimp white spot syndrome virus ) [TaxId: 92652 ],	SCOPe (2.08)
J	d2ed6j_	All beta proteins	WSSV envelope protein-like	WSSV envelope protein-like	WSSV envelope protein-like	Envelope protein VP28	(Shrimp white spot syndrome virus ) [TaxId: 92652 ],	SCOPe (2.08)
I	d2ed6i_	All beta proteins	WSSV envelope protein-like	WSSV envelope protein-like	WSSV envelope protein-like	Envelope protein VP28	(Shrimp white spot syndrome virus ) [TaxId: 92652 ],	SCOPe (2.08)
H	d2ed6h_	All beta proteins	WSSV envelope protein-like	WSSV envelope protein-like	WSSV envelope protein-like	Envelope protein VP28	(Shrimp white spot syndrome virus ) [TaxId: 92652 ],	SCOPe (2.08)
G	d2ed6g_	All beta proteins	WSSV envelope protein-like	WSSV envelope protein-like	WSSV envelope protein-like	Envelope protein VP28	(Shrimp white spot syndrome virus ) [TaxId: 92652 ],	SCOPe (2.08)
F	d2ed6f_	All beta proteins	WSSV envelope protein-like	WSSV envelope protein-like	WSSV envelope protein-like	Envelope protein VP28	(Shrimp white spot syndrome virus ) [TaxId: 92652 ],	SCOPe (2.08)
E	d2ed6e_	All beta proteins	WSSV envelope protein-like	WSSV envelope protein-like	WSSV envelope protein-like	Envelope protein VP28	(Shrimp white spot syndrome virus ) [TaxId: 92652 ],	SCOPe (2.08)
D	d2ed6d_	All beta proteins	WSSV envelope protein-like	WSSV envelope protein-like	WSSV envelope protein-like	Envelope protein VP28	(Shrimp white spot syndrome virus ) [TaxId: 92652 ],	SCOPe (2.08)
C	d2ed6c_	All beta proteins	WSSV envelope protein-like	WSSV envelope protein-like	WSSV envelope protein-like	Envelope protein VP28	(Shrimp white spot syndrome virus ) [TaxId: 92652 ],	SCOPe (2.08)
B	d2ed6b_	All beta proteins	WSSV envelope protein-like	WSSV envelope protein-like	WSSV envelope protein-like	Envelope protein VP28	(Shrimp white spot syndrome virus ) [TaxId: 92652 ],	SCOPe (2.08)
A	d2ed6a1	All beta proteins	WSSV envelope protein-like	WSSV envelope protein-like	WSSV envelope protein-like	Envelope protein VP28	(Shrimp white spot syndrome virus ) [TaxId: 92652 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
L	SCOP2B Superfamily	WSSV envelope protein-like	8033917	3000298	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	WSSV envelope protein-like	8033917	3000298	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	WSSV envelope protein-like	8033917	3000298	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	WSSV envelope protein-like	8033917	3000298	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	WSSV envelope protein-like	8033917	3000298	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	WSSV envelope protein-like	8033917	3000298	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	WSSV envelope protein-like	8033917	3000298	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	WSSV envelope protein-like	8033917	3000298	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	WSSV envelope protein-like	8033917	3000298	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	WSSV envelope protein-like	8033917	3000298	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	WSSV envelope protein-like	8033917	3000298	SCOP2B (2022-06-29)
A	SCOP2 Family	WSSV envelope protein-like	8021537	4001723	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	WSSV envelope protein-like	8033917	3000298	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
L	Alpha-L-AF_C	e2ed6L1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: Alpha-L-AF_C	ECOD (v294.1)
K	Alpha-L-AF_C	e2ed6K1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: Alpha-L-AF_C	ECOD (v294.1)
J	Alpha-L-AF_C	e2ed6J1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: Alpha-L-AF_C	ECOD (v294.1)
I	Alpha-L-AF_C	e2ed6I1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: Alpha-L-AF_C	ECOD (v294.1)
H	Alpha-L-AF_C	e2ed6H1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: Alpha-L-AF_C	ECOD (v294.1)
G	Alpha-L-AF_C	e2ed6G1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: Alpha-L-AF_C	ECOD (v294.1)
F	Alpha-L-AF_C	e2ed6F1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: Alpha-L-AF_C	ECOD (v294.1)
E	Alpha-L-AF_C	e2ed6E1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: Alpha-L-AF_C	ECOD (v294.1)
D	Alpha-L-AF_C	e2ed6D1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: Alpha-L-AF_C	ECOD (v294.1)
C	Alpha-L-AF_C	e2ed6C1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: Alpha-L-AF_C	ECOD (v294.1)
B	Alpha-L-AF_C	e2ed6B1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: Alpha-L-AF_C	ECOD (v294.1)
A	WSS_VP	e2ed6A1	A: beta sandwiches	X: Baculovirus p35 protein-related	H: Baculovirus p35 protein-related	T: Baculovirus p35 protein-related	F: WSS_VP	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
L	2.60.40.2770	Mainly Beta	Sandwich	Immunoglobulin-like	WSSV envelope protein-like	CATH (4.3.0)
K	2.60.40.2770	Mainly Beta	Sandwich	Immunoglobulin-like	WSSV envelope protein-like	CATH (4.3.0)
J	2.60.40.2770	Mainly Beta	Sandwich	Immunoglobulin-like	WSSV envelope protein-like	CATH (4.3.0)
I	2.60.40.2770	Mainly Beta	Sandwich	Immunoglobulin-like	WSSV envelope protein-like	CATH (4.3.0)
H	2.60.40.2770	Mainly Beta	Sandwich	Immunoglobulin-like	WSSV envelope protein-like	CATH (4.3.0)
G	2.60.40.2770	Mainly Beta	Sandwich	Immunoglobulin-like	WSSV envelope protein-like	CATH (4.3.0)
F	2.60.40.2770	Mainly Beta	Sandwich	Immunoglobulin-like	WSSV envelope protein-like	CATH (4.3.0)
E	2.60.40.2770	Mainly Beta	Sandwich	Immunoglobulin-like	WSSV envelope protein-like	CATH (4.3.0)
D	2.60.40.2770	Mainly Beta	Sandwich	Immunoglobulin-like	WSSV envelope protein-like	CATH (4.3.0)
C	2.60.40.2770	Mainly Beta	Sandwich	Immunoglobulin-like	WSSV envelope protein-like	CATH (4.3.0)
B	2.60.40.2770	Mainly Beta	Sandwich	Immunoglobulin-like	WSSV envelope protein-like	CATH (4.3.0)
A	2.60.40.2770	Mainly Beta	Sandwich	Immunoglobulin-like	WSSV envelope protein-like	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, K, L	PF12175	White spot syndrome virus structural envelope protein VP (WSS_VP)	White spot syndrome virus structural envelope protein VP	This family of proteins is found in viruses. Proteins in this family are approximately 210 amino acids in length. There is a conserved NNT sequence motif. These proteins are structural envelope proteins in viruses. This is the beta barrel C terminal ...	This family of proteins is found in viruses. Proteins in this family are approximately 210 amino acids in length. There is a conserved NNT sequence motif. These proteins are structural envelope proteins in viruses. This is the beta barrel C terminal domain. There is a protruding N terminal domain which completes the proteins. Three of four envelope proteins in white spot syndrome virus share sequence homology with each other and are present in this family - VP24, VP26 and VP28. VP19 is the other major envelope protein but shares no sequence homology with the other proteins. These proteins are essential for entry into cells of the crustacean host.	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, K, L	25kDa structural protein VP25	-	-	virion component viral membrane viral envelope

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, K, L	IPR022004	White spot syndrome virus structural envelope protein Vp28	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR037251	WSSV envelope protein Vp28 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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.