Annotations: 1PFX

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A [auth C]	d1pfxc_	All beta proteins	Trypsin-like serine proteases	Trypsin-like serine proteases	Eukaryotic proteases	Coagulation factor IXa, protease domain	pig (Sus scrofa ) [TaxId: 9823 ],	SCOPe (2.08)
B [auth L]	d1pfxl1	Small proteins	Knottins (small inhibitors, toxins, lectins)	EGF/Laminin	EGF-type module	Factor IX (IXa)	pig (Sus scrofa ) [TaxId: 9823 ],	SCOPe (2.08)
B [auth L]	d1pfxl3	Small proteins	GLA-domain	GLA-domain	GLA-domain	Coagulation factor IX (IXa)	pig (Sus scrofa ) [TaxId: 9823 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth C]	SCOP2 Family	Eukaryotic proteases	8029882	4000286	SCOP2 (2022-06-29)
A [auth C]	SCOP2 Superfamily	Trypsin-like serine proteases	8042261	3000114	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)
A [auth C]	Trypsin_1	e1pfxC1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Trypsin_1	ECOD (1.6)
B [auth L]	FXa_inhibition	e1pfxL2	A: few secondary structure elements	X: EGF-like	H: EGF-related	T: EGF/Laminin	F: FXa_inhibition	ECOD (1.6)
B [auth L]	hEGF_3	e1pfxL1	A: few secondary structure elements	X: EGF-like	H: EGF-related	T: EGF/Laminin	F: hEGF_3	ECOD (1.6)
B [auth L]	Gla_1	e1pfxL3	A: few secondary structure elements	X: GLA-domain (From Topology)	H: GLA-domain (From Topology)	T: GLA-domain	F: Gla_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth C]	2.40.10.10	Mainly Beta	Beta Barrel	Thrombin, subunit H	Trypsin-like serine proteases	CATH (4.3.0)
B [auth L]	4.10.740.10	Few Secondary Structures	Irregular	Coagulation Factor IX	Coagulation Factor IX	CATH (4.3.0)
B [auth L]	2.10.25.10	Mainly Beta	Ribbon	Laminin	Laminin	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth C]	PF00089	Trypsin (Trypsin)	Trypsin		Domain
B [auth L]	PF00008	EGF-like domain (EGF)	EGF-like domain	There is no clear separation between noise and signal. Pfam:PF00053 is very similar, but has 8 instead of 6 conserved cysteines. Includes some cytokine receptors. The EGF domain misses the N-terminus regions of the Ca2+ binding EGF domains (this is t ...	There is no clear separation between noise and signal. Pfam:PF00053 is very similar, but has 8 instead of 6 conserved cysteines. Includes some cytokine receptors. The EGF domain misses the N-terminus regions of the Ca2+ binding EGF domains (this is the main reason of discrepancy between swiss-prot domain start/end and Pfam). The family is hard to model due to many similar but different sub-types of EGF domains. Pfam certainly misses a number of EGF domains.	Domain
B [auth L]	PF14670	Coagulation Factor Xa inhibitory site (FXa_inhibition)	Coagulation Factor Xa inhibitory site	This short domain on coagulation enzyme factor Xa is found to be the target for a potent inhibitor of coagulation, TAK-442 [1].	Domain
B [auth L]	PF00594	Vitamin K-dependent carboxylation/gamma-carboxyglutamic (GLA) domain (Gla)	Vitamin K-dependent carboxylation/gamma-carboxyglutamic (GLA) domain	This domain is responsible for the high-affinity binding of calcium ions. This domain contains post-translational modifications of many glutamate residues by Vitamin K-dependent carboxylation to form gamma-carboxyglutamate (Gla).	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth C]	FACTOR IXA	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity endopeptidase activity serine hydrolase activity serine-type peptidase activity serine-type endopeptidase activity	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 proteolysis metabolic process cellular process 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 proteolysis metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process zymogen activation gene expression macromolecule biosynthetic process protein maturation biosynthetic process protein processing	cellular anatomical structure extracellular region extracellular space
B [auth L]	FACTOR IXA	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity endopeptidase activity serine hydrolase activity serine-type peptidase activity serine-type endopeptidase activity	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 proteolysis metabolic process cellular process 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 proteolysis metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process zymogen activation gene expression macromolecule biosynthetic process protein maturation biosynthetic process protein processing	cellular anatomical structure extracellular region extracellular space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth C]	IPR050442	Peptidase S1 family, coagulation factors	Family
A [auth C]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
A [auth C]	IPR000294	Gamma-carboxyglutamic acid-rich (GLA) domain	Domain
A [auth C]	IPR017857	Coagulation factor-like, Gla domain superfamily	Homologous Superfamily
A [auth C]	IPR018097	EGF-like calcium-binding, conserved site	Conserved Site
A [auth C]	IPR001314	Peptidase S1A, chymotrypsin family	Family
A [auth C]	IPR033116	Serine proteases, trypsin family, serine active site	Active Site
A [auth C]	IPR001254	Serine proteases, trypsin domain	Domain
A [auth C]	IPR035972	Gamma-carboxyglutamic acid-rich (GLA) domain superfamily	Homologous Superfamily
A [auth C]	IPR001881	EGF-like calcium-binding domain	Domain
A [auth C]	IPR000742	EGF-like domain	Domain
A [auth C]	IPR043504	Peptidase S1, PA clan, chymotrypsin-like fold	Homologous Superfamily
A [auth C]	IPR000152	EGF-type aspartate/asparagine hydroxylation site	PTM
A [auth C]	IPR018114	Serine proteases, trypsin family, histidine active site	Active Site
A [auth C]	IPR012224	Peptidase S1A, coagulation factor VII/IX/X/C/Z	Family
B [auth L]	IPR050442	Peptidase S1 family, coagulation factors	Family
B [auth L]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
B [auth L]	IPR000294	Gamma-carboxyglutamic acid-rich (GLA) domain	Domain
B [auth L]	IPR017857	Coagulation factor-like, Gla domain superfamily	Homologous Superfamily
B [auth L]	IPR018097	EGF-like calcium-binding, conserved site	Conserved Site
B [auth L]	IPR001314	Peptidase S1A, chymotrypsin family	Family
B [auth L]	IPR033116	Serine proteases, trypsin family, serine active site	Active Site
B [auth L]	IPR001254	Serine proteases, trypsin domain	Domain
B [auth L]	IPR035972	Gamma-carboxyglutamic acid-rich (GLA) domain superfamily	Homologous Superfamily
B [auth L]	IPR001881	EGF-like calcium-binding domain	Domain
B [auth L]	IPR000742	EGF-like domain	Domain
B [auth L]	IPR043504	Peptidase S1, PA clan, chymotrypsin-like fold	Homologous Superfamily
B [auth L]	IPR000152	EGF-type aspartate/asparagine hydroxylation site	PTM
B [auth L]	IPR018114	Serine proteases, trypsin family, histidine active site	Active Site
B [auth L]	IPR012224	Peptidase S1A, coagulation factor VII/IX/X/C/Z	Family

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B [auth L]	BHD	Parent Component: ASP RESID: AA0579 PSI-MOD : (2S,3S)-3-hydroxyaspartic acid MOD:01919
B [auth L]	CGU	Parent Component: GLU RESID: AA0579 , AA0032 PSI-MOD : (2S,3S)-3-hydroxyaspartic acid MOD:01919 , L-gamma-carboxyglutamic acid MOD:00041