6M3C | pdb_00006m3c

hAPC-h1573 Fab complex

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Trypsin-like serine proteases	8042258	3000114	SCOP2B (2022-06-29)
E [auth C]	SCOP2B Superfamily	Trypsin-like serine proteases	8042258	3000114	SCOP2B (2022-06-29)
I [auth G]	SCOP2B Superfamily	Trypsin-like serine proteases	8042258	3000114	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	EGF/Laminin-like	8038301	3000412	SCOP2B (2022-06-29)
F [auth D]	SCOP2B Superfamily	EGF/Laminin-like	8038301	3000412	SCOP2B (2022-06-29)
J [auth I]	SCOP2B Superfamily	EGF/Laminin-like	8038301	3000412	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	Trypsin	e6m3cA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Trypsin	ECOD (1.6)
E [auth C]	Trypsin	e6m3cC1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Trypsin	ECOD (1.6)
I [auth G]	Trypsin	e6m3cG1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Trypsin	ECOD (1.6)
B	FXa_inhibition	e6m3cB1	A: few secondary structure elements	X: EGF-like	H: EGF-related	T: EGF/Laminin	F: FXa_inhibition	ECOD (1.6)
F [auth D]	FXa_inhibition	e6m3cD1	A: few secondary structure elements	X: EGF-like	H: EGF-related	T: EGF/Laminin	F: FXa_inhibition	ECOD (1.6)
J [auth I]	FXa_inhibition	e6m3cI1	A: few secondary structure elements	X: EGF-like	H: EGF-related	T: EGF/Laminin	F: FXa_inhibition	ECOD (1.6)
C [auth L]	C1-set_4	e6m3cL1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
C [auth L]	V-set	e6m3cL2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
G [auth E]	C1-set_4	e6m3cE2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
G [auth E]	V-set	e6m3cE1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
K [auth J]	C1-set_4	e6m3cJ1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
K [auth J]	V-set	e6m3cJ2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
D [auth H]	C1-set_1	e6m3cH2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
D [auth H]	V-set_12	e6m3cH1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_12	ECOD (1.6)
H [auth F]	C1-set_1	e6m3cF2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
H [auth F]	V-set_12	e6m3cF1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_12	ECOD (1.6)
L [auth K]	C1-set_1	e6m3cK2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
L [auth K]	V-set_12	e6m3cK1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_12	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.40.10.10	Mainly Beta	Beta Barrel	Thrombin, subunit H	Trypsin-like serine proteases	CATH (utative)
E [auth C]	2.40.10.10	Mainly Beta	Beta Barrel	Thrombin, subunit H	Trypsin-like serine proteases	CATH (utative)
I [auth G]	2.40.10.10	Mainly Beta	Beta Barrel	Thrombin, subunit H	Trypsin-like serine proteases	CATH (utative)
B	2.10.25.10	Mainly Beta	Ribbon	Laminin	Laminin	CATH (utative)
F [auth D]	2.10.25.10	Mainly Beta	Ribbon	Laminin	Laminin	CATH (utative)
J [auth I]	2.10.25.10	Mainly Beta	Ribbon	Laminin	Laminin	CATH (utative)
C [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
G [auth E]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
K [auth J]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
D [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
H [auth F]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
L [auth K]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)

IMGT Antibody Annotation IMGT Database Homepage

Chain	Protein Name	Description	Organism Name	Gene Allele Name(s)	Domain Name(s)	Receptor Type	Receptor Description	Provenance Source
C [auth L], G [auth E], K [auth J]	Fab hAPC-h1573	L-KAPPA	Chimeric (chimeric)	IGKV3-1001, IGKJ201, IGKJ203, IGKC01	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202510-0)
D [auth H], H [auth F], L [auth K]	Fab hAPC-h1573	VH-CH1	Chimeric (chimeric)	IGHV6-602, IGHJ301, IGHJ401, IGHG101, IGHG102, IGHG104, IGHG105, IGHG112, IGHG114, IGHG113, IGHG109, IGHG110, IGHG107, IGHG111	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202510-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
C [auth L], G [auth E], K [auth J]	Light Chain	IGKV3	Kappa	vitamin k-dependent protein c heavy chain	SAbDab (2025-03-21)
D [auth H], H [auth F], L [auth K]	Heavy Chain	IGHV3	-	vitamin k-dependent protein c heavy chain	SAbDab (2025-03-21)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, E [auth C], I [auth G]	PF00089	Trypsin (Trypsin)	Trypsin		Domain
B, F [auth D], J [auth I]	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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, E [auth C], I [auth G]	Vitamin K-dependent protein C heavy chain	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding peptidase activity catalytic activity, acting on a protein serine hydrolase activity serine-type peptidase activity hydrolase activity serine-type endopeptidase activity catalytic activity 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 regulation of biological process regulation of cellular process negative regulation of programmed cell death 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 regulation of biological process regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process cellular process apoptotic process programmed cell death regulation of defense response regulation of response to external stimulus negative regulation of inflammatory response defense response negative regulation of response to stimulus response to external stimulus regulation of inflammatory response regulation of response to stimulus negative regulation of response to external stimulus regulation of response to stress negative regulation of defense response inflammatory response regulation of response to wounding regulation of coagulation regulation of multicellular organismal process regulation of hemostasis negative regulation of wound healing regulation of blood coagulation negative regulation of blood coagulation negative regulation of response to wounding negative regulation of hemostasis negative regulation of coagulation regulation of wound healing negative regulation of multicellular organismal process regulation of establishment of endothelial barrier cellular developmental process regulation of developmental process positive regulation of endothelial cell development endothelium development positive regulation of biological process cell development regulation of cell differentiation epithelial cell differentiation regulation of cell development regulation of epithelial cell differentiation endothelial cell development positive regulation of developmental process multicellular organism development positive regulation of cell differentiation cell differentiation regulation of endothelial cell development anatomical structure development positive regulation of cellular process developmental process epithelium development regulation of multicellular organismal development endothelial cell differentiation regulation of endothelial cell differentiation positive regulation of cell development positive regulation of establishment of endothelial barrier tissue development epithelial cell development establishment of endothelial barrier proteolysis metabolic process primary metabolic process protein metabolic process macromolecule metabolic process	membrane-bounded organelle intracellular anatomical structure Golgi apparatus membrane-enclosed lumen intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen Golgi lumen intracellular organelle cellular anatomical structure organelle lumen organelle cytoplasm endoplasmic reticulum lumen membrane-bounded organelle intracellular anatomical structure Golgi apparatus membrane-enclosed lumen intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen Golgi lumen intracellular organelle cellular anatomical structure organelle lumen organelle cytoplasm endoplasmic reticulum lumen endoplasmic reticulum extracellular region extracellular space
B, F [auth D], J [auth I]	Vitamin K-dependent protein C light chain	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding peptidase activity catalytic activity, acting on a protein serine hydrolase activity serine-type peptidase activity hydrolase activity serine-type endopeptidase activity catalytic activity 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 regulation of biological process regulation of cellular process negative regulation of programmed cell death 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 regulation of biological process regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process cellular process apoptotic process programmed cell death regulation of defense response regulation of response to external stimulus negative regulation of inflammatory response defense response negative regulation of response to stimulus response to external stimulus regulation of inflammatory response regulation of response to stimulus negative regulation of response to external stimulus regulation of response to stress negative regulation of defense response inflammatory response regulation of response to wounding regulation of coagulation regulation of multicellular organismal process regulation of hemostasis negative regulation of wound healing regulation of blood coagulation negative regulation of blood coagulation negative regulation of response to wounding negative regulation of hemostasis negative regulation of coagulation regulation of wound healing negative regulation of multicellular organismal process regulation of establishment of endothelial barrier cellular developmental process regulation of developmental process positive regulation of endothelial cell development endothelium development positive regulation of biological process cell development regulation of cell differentiation epithelial cell differentiation regulation of cell development regulation of epithelial cell differentiation endothelial cell development positive regulation of developmental process multicellular organism development positive regulation of cell differentiation cell differentiation regulation of endothelial cell development anatomical structure development positive regulation of cellular process developmental process epithelium development regulation of multicellular organismal development endothelial cell differentiation regulation of endothelial cell differentiation positive regulation of cell development positive regulation of establishment of endothelial barrier tissue development epithelial cell development establishment of endothelial barrier proteolysis metabolic process primary metabolic process protein metabolic process macromolecule metabolic process	membrane-bounded organelle intracellular anatomical structure Golgi apparatus membrane-enclosed lumen intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen Golgi lumen intracellular organelle cellular anatomical structure organelle lumen organelle cytoplasm endoplasmic reticulum lumen membrane-bounded organelle intracellular anatomical structure Golgi apparatus membrane-enclosed lumen intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen Golgi lumen intracellular organelle cellular anatomical structure organelle lumen organelle cytoplasm endoplasmic reticulum lumen endoplasmic reticulum extracellular region extracellular space
C [auth L], G [auth E], K [auth J]	h1573 Fab H chain	-	-	-
D [auth H], H [auth F], L [auth K]	h1573 Fab L chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

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

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, E [auth C], I [auth G]	Pharos: P04070	thrombophilia due to protein C deficiency, autosomal recessive purpura fulminans Venous Thrombosis disseminated intravascular coagulation hereditary thrombophilia due to congenital protein C deficiency thrombophilia due to protein C deficiency, autosomal dominant venous thromboembolism arteritis hypertensive disorder thrombophilia pancreatic intraductal papillary-mucinous carcinoma thrombotic disease chronic kidney disease lung carcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia thrombophilia due to protein C deficiency, autosomal recessive purpura fulminans Venous Thrombosis disseminated intravascular coagulation hereditary thrombophilia due to congenital protein C deficiency thrombophilia due to protein C deficiency, autosomal dominant venous thromboembolism arteritis hypertensive disorder thrombophilia pancreatic intraductal papillary-mucinous carcinoma thrombotic disease chronic kidney disease lung carcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia ovarian cancer
B, F [auth D], J [auth I]	Pharos: P04070	thrombophilia due to protein C deficiency, autosomal recessive purpura fulminans Venous Thrombosis disseminated intravascular coagulation hereditary thrombophilia due to congenital protein C deficiency thrombophilia due to protein C deficiency, autosomal dominant venous thromboembolism arteritis hypertensive disorder thrombophilia pancreatic intraductal papillary-mucinous carcinoma thrombotic disease chronic kidney disease lung carcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia thrombophilia due to protein C deficiency, autosomal recessive purpura fulminans Venous Thrombosis disseminated intravascular coagulation hereditary thrombophilia due to congenital protein C deficiency thrombophilia due to protein C deficiency, autosomal dominant venous thromboembolism arteritis hypertensive disorder thrombophilia pancreatic intraductal papillary-mucinous carcinoma thrombotic disease chronic kidney disease lung carcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia ovarian cancer