1SDD | pdb_00001sdd

Crystal Structure of Bovine Factor Vai

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
Membrane Protein Annotation: OPM

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d1sddb1	All beta proteins	Cupredoxin-like	Cupredoxins	Multidomain cupredoxins	Coagulation factor V	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
B	d1sddb3	All beta proteins	Galactose-binding domain-like	Galactose-binding domain-like	Discoidin domain (FA58C, coagulation factor 5/8 C-terminal domain)	C2 domain of factor V	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
A	d1sdda1	All beta proteins	Cupredoxin-like	Cupredoxins	Multidomain cupredoxins	Coagulation factor V	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2 Family	Discoidin domain (fa58c, coagulation factor 5/8 c-terminal domain)	8026974	4002473	SCOP2 (2022-06-29)
B	SCOP2 Family	Discoidin domain (fa58c, coagulation factor 5/8 c-terminal domain)	8026976	4002473	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	galactose-binding domain-like	8039353	3000087	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	galactose-binding domain-like	8039355	3000087	SCOP2 (2022-06-29)
A	SCOP2 Family	Multidomain cupredoxins	8026971	4002203	SCOP2 (2022-06-29)
A	SCOP2 Family	Multidomain cupredoxins	8026972	4002203	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Cupredoxins	8039350	3000886	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Cupredoxins	8039351	3000886	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)
B	F5_F8_type_C	e1sddB1	A: beta sandwiches	X: jelly-roll	H: Galactose-binding domain-like	T: Galactose-binding domain-like	F: F5_F8_type_C	ECOD (v294.1)
B	Cu-oxidase_2	e1sddB4	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Cupredoxin-related	T: Cupredoxin-related	F: Cu-oxidase_2	ECOD (v294.1)
B	PHD	e1sddB3	A: a/b three-layered sandwiches	X: CXXC domain-like	H: CXXC domain	T: CXXC domain	F: PHD	ECOD (v294.1)
B	V_ATPase_I	e1sddB5	A: a/b three-layered sandwiches	X: Alpha-beta plaits	H: Pseudouridine synthase	T: Pseudouridine synthase	F: V_ATPase_I	ECOD (v294.1)
A	PHP	e1sddA3	A: a/b three-layered sandwiches	X: Fusion glycoprotein F2	H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	F: PHP	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	2.60.40.420	Mainly Beta	Sandwich	Immunoglobulin-like	Cupredoxins - blue copper proteins	CATH (4.3.0)
B	2.60.120.260	Mainly Beta	Sandwich	Jelly Rolls	Galactose-binding domain-like	CATH (4.3.0)
A	2.60.40.420	Mainly Beta	Sandwich	Immunoglobulin-like	Cupredoxins - blue copper proteins	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	PF00754	F5/8 type C domain (F5_F8_type_C)	F5/8 type C domain	This domain is also known as the discoidin (DS) domain family [1].	Domain
B	PF07732	Multicopper oxidase (Cu-oxidase_3)	Multicopper oxidase	This entry contains many divergent copper oxidase-like domains that are not recognised by the Pfam:PF00394 model.	Domain
A	PF07732	Multicopper oxidase (Cu-oxidase_3)	Multicopper oxidase	This entry contains many divergent copper oxidase-like domains that are not recognised by the Pfam:PF00394 model.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	Coagulation factor V	cation binding transition metal ion binding copper ion binding ion binding binding metal ion binding small molecule binding	multicellular organismal process regulation of body fluid levels wound healing response to stimulus hemostasis biological regulation blood coagulation response to stress coagulation regulation of biological quality response to wounding system process circulatory system process blood circulation	membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm platelet alpha granule vesicle membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm platelet alpha granule vesicle extracellular region extracellular space
A	Coagulation factor V	cation binding transition metal ion binding copper ion binding ion binding binding metal ion binding small molecule binding	multicellular organismal process regulation of body fluid levels wound healing response to stimulus hemostasis biological regulation blood coagulation response to stress coagulation regulation of biological quality response to wounding system process circulatory system process blood circulation	membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm platelet alpha granule vesicle membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm platelet alpha granule vesicle extracellular region extracellular space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR033138	Multicopper oxidases, conserved site	Conserved Site
B	IPR008979	Galactose-binding-like domain superfamily	Homologous Superfamily
B	IPR011707	Multicopper oxidase-like, N-terminal	Domain
B	IPR024715	Coagulation factor 5/8-like	Family
B	IPR000421	Coagulation factor 5/8, C-terminal domain	Domain
B	IPR008972	Cupredoxin	Homologous Superfamily
B	IPR050633	Neuropilin/Multicopper Oxidase/Coagulation Factor	Family
B	IPR009271	Coagulation factor V, LSPD	Repeat
A	IPR033138	Multicopper oxidases, conserved site	Conserved Site
A	IPR008979	Galactose-binding-like domain superfamily	Homologous Superfamily
A	IPR011707	Multicopper oxidase-like, N-terminal	Domain
A	IPR024715	Coagulation factor 5/8-like	Family
A	IPR000421	Coagulation factor 5/8, C-terminal domain	Domain
A	IPR008972	Cupredoxin	Homologous Superfamily
A	IPR050633	Neuropilin/Multicopper Oxidase/Coagulation Factor	Family
A	IPR009271	Coagulation factor V, LSPD	Repeat

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B	OPM	Monotopic/peripheral	All beta monotopic/peripheral	Galactose-binding domain-like	Discoidin domain

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.