2PNL | pdb_00002pnl

Crystal structure of VP4 protease from infectious pancreatic necrosis virus (IPNV) in space group P1

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	Ribosomal protein S5 domain 2-like	8053555	3000100	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Ribosomal protein S5 domain 2-like	8053555	3000100	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Ribosomal protein S5 domain 2-like	8053555	3000100	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Ribosomal protein S5 domain 2-like	8053555	3000100	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Ribosomal protein S5 domain 2-like	8053555	3000100	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Ribosomal protein S5 domain 2-like	8053555	3000100	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Ribosomal protein S5 domain 2-like	8053555	3000100	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Ribosomal protein S5 domain 2-like	8053555	3000100	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Ribosomal protein S5 domain 2-like	8053555	3000100	SCOP2B (2022-06-29)
A	SCOP2 Family	Birnavirus VP4 protease-like	8049477	4006521	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Ribosomal protein S5 domain 2-like	8053555	3000100	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)
J	Birna_VP4_1st	e2pnlJ3	A: a+b two layers	X: Ribosomal protein S5 domain 2-like (From Topology)	H: Ribosomal protein S5 domain 2-like (From Topology)	T: Ribosomal protein S5 domain 2-like	F: Birna_VP4_1st	ECOD (1.6)
J	Birna_VP4_2nd	e2pnlJ2	A: a/b three-layered sandwiches	X: C-terminal subdomain in Lon-related proteases catalytic domains (From Topology)	H: C-terminal subdomain in Lon-related proteases catalytic domains (From Topology)	T: C-terminal subdomain in Lon-related proteases catalytic domains	F: Birna_VP4_2nd	ECOD (1.6)
I	Birna_VP4_1st	e2pnlI3	A: a+b two layers	X: Ribosomal protein S5 domain 2-like (From Topology)	H: Ribosomal protein S5 domain 2-like (From Topology)	T: Ribosomal protein S5 domain 2-like	F: Birna_VP4_1st	ECOD (1.6)
I	Birna_VP4_2nd	e2pnlI2	A: a/b three-layered sandwiches	X: C-terminal subdomain in Lon-related proteases catalytic domains (From Topology)	H: C-terminal subdomain in Lon-related proteases catalytic domains (From Topology)	T: C-terminal subdomain in Lon-related proteases catalytic domains	F: Birna_VP4_2nd	ECOD (1.6)
H	Birna_VP4_1st	e2pnlH3	A: a+b two layers	X: Ribosomal protein S5 domain 2-like (From Topology)	H: Ribosomal protein S5 domain 2-like (From Topology)	T: Ribosomal protein S5 domain 2-like	F: Birna_VP4_1st	ECOD (1.6)
H	Birna_VP4_2nd	e2pnlH2	A: a/b three-layered sandwiches	X: C-terminal subdomain in Lon-related proteases catalytic domains (From Topology)	H: C-terminal subdomain in Lon-related proteases catalytic domains (From Topology)	T: C-terminal subdomain in Lon-related proteases catalytic domains	F: Birna_VP4_2nd	ECOD (1.6)
G	Birna_VP4_1st	e2pnlG3	A: a+b two layers	X: Ribosomal protein S5 domain 2-like (From Topology)	H: Ribosomal protein S5 domain 2-like (From Topology)	T: Ribosomal protein S5 domain 2-like	F: Birna_VP4_1st	ECOD (1.6)
G	Birna_VP4_2nd	e2pnlG2	A: a/b three-layered sandwiches	X: C-terminal subdomain in Lon-related proteases catalytic domains (From Topology)	H: C-terminal subdomain in Lon-related proteases catalytic domains (From Topology)	T: C-terminal subdomain in Lon-related proteases catalytic domains	F: Birna_VP4_2nd	ECOD (1.6)
F	Birna_VP4_1st	e2pnlF3	A: a+b two layers	X: Ribosomal protein S5 domain 2-like (From Topology)	H: Ribosomal protein S5 domain 2-like (From Topology)	T: Ribosomal protein S5 domain 2-like	F: Birna_VP4_1st	ECOD (1.6)
F	Birna_VP4_2nd	e2pnlF2	A: a/b three-layered sandwiches	X: C-terminal subdomain in Lon-related proteases catalytic domains (From Topology)	H: C-terminal subdomain in Lon-related proteases catalytic domains (From Topology)	T: C-terminal subdomain in Lon-related proteases catalytic domains	F: Birna_VP4_2nd	ECOD (1.6)
E	Birna_VP4_1st	e2pnlE3	A: a+b two layers	X: Ribosomal protein S5 domain 2-like (From Topology)	H: Ribosomal protein S5 domain 2-like (From Topology)	T: Ribosomal protein S5 domain 2-like	F: Birna_VP4_1st	ECOD (1.6)
E	Birna_VP4_2nd	e2pnlE2	A: a/b three-layered sandwiches	X: C-terminal subdomain in Lon-related proteases catalytic domains (From Topology)	H: C-terminal subdomain in Lon-related proteases catalytic domains (From Topology)	T: C-terminal subdomain in Lon-related proteases catalytic domains	F: Birna_VP4_2nd	ECOD (1.6)
D	Birna_VP4_1st	e2pnlD3	A: a+b two layers	X: Ribosomal protein S5 domain 2-like (From Topology)	H: Ribosomal protein S5 domain 2-like (From Topology)	T: Ribosomal protein S5 domain 2-like	F: Birna_VP4_1st	ECOD (1.6)
D	Birna_VP4_2nd	e2pnlD2	A: a/b three-layered sandwiches	X: C-terminal subdomain in Lon-related proteases catalytic domains (From Topology)	H: C-terminal subdomain in Lon-related proteases catalytic domains (From Topology)	T: C-terminal subdomain in Lon-related proteases catalytic domains	F: Birna_VP4_2nd	ECOD (1.6)
C	Birna_VP4_1st	e2pnlC3	A: a+b two layers	X: Ribosomal protein S5 domain 2-like (From Topology)	H: Ribosomal protein S5 domain 2-like (From Topology)	T: Ribosomal protein S5 domain 2-like	F: Birna_VP4_1st	ECOD (1.6)
C	Birna_VP4_2nd	e2pnlC2	A: a/b three-layered sandwiches	X: C-terminal subdomain in Lon-related proteases catalytic domains (From Topology)	H: C-terminal subdomain in Lon-related proteases catalytic domains (From Topology)	T: C-terminal subdomain in Lon-related proteases catalytic domains	F: Birna_VP4_2nd	ECOD (1.6)
B	Birna_VP4_1st	e2pnlB3	A: a+b two layers	X: Ribosomal protein S5 domain 2-like (From Topology)	H: Ribosomal protein S5 domain 2-like (From Topology)	T: Ribosomal protein S5 domain 2-like	F: Birna_VP4_1st	ECOD (1.6)
B	Birna_VP4_2nd	e2pnlB2	A: a/b three-layered sandwiches	X: C-terminal subdomain in Lon-related proteases catalytic domains (From Topology)	H: C-terminal subdomain in Lon-related proteases catalytic domains (From Topology)	T: C-terminal subdomain in Lon-related proteases catalytic domains	F: Birna_VP4_2nd	ECOD (1.6)
A	Birna_VP4_1st	e2pnlA3	A: a+b two layers	X: Ribosomal protein S5 domain 2-like (From Topology)	H: Ribosomal protein S5 domain 2-like (From Topology)	T: Ribosomal protein S5 domain 2-like	F: Birna_VP4_1st	ECOD (1.6)
A	Birna_VP4_2nd	e2pnlA2	A: a/b three-layered sandwiches	X: C-terminal subdomain in Lon-related proteases catalytic domains (From Topology)	H: C-terminal subdomain in Lon-related proteases catalytic domains (From Topology)	T: C-terminal subdomain in Lon-related proteases catalytic domains	F: Birna_VP4_2nd	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
J	3.30.230.110	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (4.3.0)
I	3.30.230.110	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (4.3.0)
H	3.30.230.110	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (4.3.0)
G	3.30.230.110	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (4.3.0)
F	3.30.230.110	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (4.3.0)
E	3.30.230.110	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (4.3.0)
D	3.30.230.110	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (4.3.0)
C	3.30.230.110	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (4.3.0)
B	3.30.230.110	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (4.3.0)
A	3.30.230.110	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	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	PF01768	Birnavirus VP4 protein (Birna_VP4)	Birnavirus VP4 protein	-	Family

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	Protease VP4	structural molecule activity peptidase activity serine hydrolase activity catalytic activity, acting on a protein serine-type peptidase activity hydrolase activity catalytic activity cation binding ion binding binding metal ion binding small molecule binding	proteolysis metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process	viral capsid virion component 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	IPR029053	Viral coat protein subunit	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR043048	Birnavirus VP3, domain 1	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR002662	Birnavirus VP2 protein	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR025775	Birnavirus VP4 protease domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR002663	Birnavirus VP3 protein	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR043049	Birnavirus VP3, domain 2	Homologous Superfamily