7WPQ | pdb_00007wpq

Cryo-EM structure of VWF D'D3 dimer complexed with D1D2 at 3.27 angstron resolution (2 units)

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
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
H	SCOP2B Superfamily	von Willebrand factor type D domain-like	8107359	3002872	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	von Willebrand factor type D domain-like	8107359	3002872	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	von Willebrand factor type D domain-like	8107359	3002872	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	von Willebrand factor type D domain-like	8107359	3002872	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)
H	F_UNCLASSIFIED	e7wpqH4	A: beta barrels	X: Repulsive guidance molecule (RGM) family (From Topology)	H: Repulsive guidance molecule (RGM) family (From Topology)	T: Repulsive guidance molecule (RGM) family	F: F_UNCLASSIFIED	ECOD (1.6)
H	TIL	e7wpqH1	A: few secondary structure elements	X: EGF-like	H: Serine protease inhibitors (From Topology)	T: Serine protease inhibitors	F: TIL	ECOD (1.6)
H	Pacifastin_I_1	e7wpqH2	A: few secondary structure elements	X: Fibronectin type I module-like (From Homology)	H: Fibronectin type I module-like	T: Fibronectin type I module	F: Pacifastin_I_1	ECOD (1.6)
H	VWC	e7wpqH6	A: few secondary structure elements	X: Fibronectin type I module-like (From Homology)	H: Fibronectin type I module-like	T: Fibronectin type I module	F: VWC	ECOD (1.6)
H	F_UNCLASSIFIED	e7wpqH3	A: few secondary structure elements	X: VWF C8-3 module (From Topology)	H: VWF C8-3 module (From Topology)	T: VWF C8-3 module	F: F_UNCLASSIFIED	ECOD (1.6)
F	F_UNCLASSIFIED	e7wpqF3	A: beta barrels	X: Repulsive guidance molecule (RGM) family (From Topology)	H: Repulsive guidance molecule (RGM) family (From Topology)	T: Repulsive guidance molecule (RGM) family	F: F_UNCLASSIFIED	ECOD (1.6)
F	TIL	e7wpqF4	A: few secondary structure elements	X: EGF-like	H: Serine protease inhibitors (From Topology)	T: Serine protease inhibitors	F: TIL	ECOD (1.6)
F	Pacifastin_I_1	e7wpqF2	A: few secondary structure elements	X: Fibronectin type I module-like (From Homology)	H: Fibronectin type I module-like	T: Fibronectin type I module	F: Pacifastin_I_1	ECOD (1.6)
F	VWC	e7wpqF1	A: few secondary structure elements	X: Fibronectin type I module-like (From Homology)	H: Fibronectin type I module-like	T: Fibronectin type I module	F: VWC	ECOD (1.6)
F	F_UNCLASSIFIED	e7wpqF5	A: few secondary structure elements	X: VWF C8-3 module (From Topology)	H: VWF C8-3 module (From Topology)	T: VWF C8-3 module	F: F_UNCLASSIFIED	ECOD (1.6)
D	F_UNCLASSIFIED	e7wpqD5	A: beta barrels	X: Repulsive guidance molecule (RGM) family (From Topology)	H: Repulsive guidance molecule (RGM) family (From Topology)	T: Repulsive guidance molecule (RGM) family	F: F_UNCLASSIFIED	ECOD (1.6)
D	TIL	e7wpqD2	A: few secondary structure elements	X: EGF-like	H: Serine protease inhibitors (From Topology)	T: Serine protease inhibitors	F: TIL	ECOD (1.6)
D	Pacifastin_I_1	e7wpqD6	A: few secondary structure elements	X: Fibronectin type I module-like (From Homology)	H: Fibronectin type I module-like	T: Fibronectin type I module	F: Pacifastin_I_1	ECOD (1.6)
D	VWC	e7wpqD1	A: few secondary structure elements	X: Fibronectin type I module-like (From Homology)	H: Fibronectin type I module-like	T: Fibronectin type I module	F: VWC	ECOD (1.6)
D	F_UNCLASSIFIED	e7wpqD4	A: few secondary structure elements	X: VWF C8-3 module (From Topology)	H: VWF C8-3 module (From Topology)	T: VWF C8-3 module	F: F_UNCLASSIFIED	ECOD (1.6)
C	F_UNCLASSIFIED	e7wpqC5	A: beta barrels	X: Repulsive guidance molecule (RGM) family (From Topology)	H: Repulsive guidance molecule (RGM) family (From Topology)	T: Repulsive guidance molecule (RGM) family	F: F_UNCLASSIFIED	ECOD (1.6)
C	TIL	e7wpqC2	A: few secondary structure elements	X: EGF-like	H: Serine protease inhibitors (From Topology)	T: Serine protease inhibitors	F: TIL	ECOD (1.6)
C	Pacifastin_I_1	e7wpqC4	A: few secondary structure elements	X: Fibronectin type I module-like (From Homology)	H: Fibronectin type I module-like	T: Fibronectin type I module	F: Pacifastin_I_1	ECOD (1.6)
C	VWC	e7wpqC1	A: few secondary structure elements	X: Fibronectin type I module-like (From Homology)	H: Fibronectin type I module-like	T: Fibronectin type I module	F: VWC	ECOD (1.6)
C	F_UNCLASSIFIED	e7wpqC3	A: few secondary structure elements	X: VWF C8-3 module (From Topology)	H: VWF C8-3 module (From Topology)	T: VWF C8-3 module	F: F_UNCLASSIFIED	ECOD (1.6)
G	F_UNCLASSIFIED	e7wpqG2	A: beta barrels	X: Repulsive guidance molecule (RGM) family (From Topology)	H: Repulsive guidance molecule (RGM) family (From Topology)	T: Repulsive guidance molecule (RGM) family	F: F_UNCLASSIFIED	ECOD (1.6)
G	MCR_beta_N,Pacifastin_I_1	e7wpqG1	A: beta barrels	X: Repulsive guidance molecule (RGM) family (From Topology)	H: Repulsive guidance molecule (RGM) family (From Topology)	T: Repulsive guidance molecule (RGM) family	F: MCR_beta_N,Pacifastin_I_1	ECOD (1.6)
G	TIL	e7wpqG6	A: few secondary structure elements	X: EGF-like	H: Serine protease inhibitors (From Topology)	T: Serine protease inhibitors	F: TIL	ECOD (1.6)
G	F_UNCLASSIFIED	e7wpqG5	A: few secondary structure elements	X: VWF C8-3 module (From Topology)	H: VWF C8-3 module (From Topology)	T: VWF C8-3 module	F: F_UNCLASSIFIED	ECOD (1.6)
E	F_UNCLASSIFIED	e7wpqE2	A: beta barrels	X: Repulsive guidance molecule (RGM) family (From Topology)	H: Repulsive guidance molecule (RGM) family (From Topology)	T: Repulsive guidance molecule (RGM) family	F: F_UNCLASSIFIED	ECOD (1.6)
E	MCR_beta_N,Pacifastin_I_1	e7wpqE1	A: beta barrels	X: Repulsive guidance molecule (RGM) family (From Topology)	H: Repulsive guidance molecule (RGM) family (From Topology)	T: Repulsive guidance molecule (RGM) family	F: MCR_beta_N,Pacifastin_I_1	ECOD (1.6)
E	TIL	e7wpqE6	A: few secondary structure elements	X: EGF-like	H: Serine protease inhibitors (From Topology)	T: Serine protease inhibitors	F: TIL	ECOD (1.6)
E	F_UNCLASSIFIED	e7wpqE5	A: few secondary structure elements	X: VWF C8-3 module (From Topology)	H: VWF C8-3 module (From Topology)	T: VWF C8-3 module	F: F_UNCLASSIFIED	ECOD (1.6)
B	F_UNCLASSIFIED	e7wpqB2	A: beta barrels	X: Repulsive guidance molecule (RGM) family (From Topology)	H: Repulsive guidance molecule (RGM) family (From Topology)	T: Repulsive guidance molecule (RGM) family	F: F_UNCLASSIFIED	ECOD (1.6)
B	MCR_beta_N,Pacifastin_I_1	e7wpqB1	A: beta barrels	X: Repulsive guidance molecule (RGM) family (From Topology)	H: Repulsive guidance molecule (RGM) family (From Topology)	T: Repulsive guidance molecule (RGM) family	F: MCR_beta_N,Pacifastin_I_1	ECOD (1.6)
B	TIL	e7wpqB6	A: few secondary structure elements	X: EGF-like	H: Serine protease inhibitors (From Topology)	T: Serine protease inhibitors	F: TIL	ECOD (1.6)
B	F_UNCLASSIFIED	e7wpqB5	A: few secondary structure elements	X: VWF C8-3 module (From Topology)	H: VWF C8-3 module (From Topology)	T: VWF C8-3 module	F: F_UNCLASSIFIED	ECOD (1.6)
A	F_UNCLASSIFIED	e7wpqA2	A: beta barrels	X: Repulsive guidance molecule (RGM) family (From Topology)	H: Repulsive guidance molecule (RGM) family (From Topology)	T: Repulsive guidance molecule (RGM) family	F: F_UNCLASSIFIED	ECOD (1.6)
A	MCR_beta_N,Pacifastin_I_1	e7wpqA1	A: beta barrels	X: Repulsive guidance molecule (RGM) family (From Topology)	H: Repulsive guidance molecule (RGM) family (From Topology)	T: Repulsive guidance molecule (RGM) family	F: MCR_beta_N,Pacifastin_I_1	ECOD (1.6)
A	TIL	e7wpqA6	A: few secondary structure elements	X: EGF-like	H: Serine protease inhibitors (From Topology)	T: Serine protease inhibitors	F: TIL	ECOD (1.6)
A	F_UNCLASSIFIED	e7wpqA5	A: few secondary structure elements	X: VWF C8-3 module (From Topology)	H: VWF C8-3 module (From Topology)	T: VWF C8-3 module	F: F_UNCLASSIFIED	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H	2.10.25.10	Mainly Beta	Ribbon	Laminin	Laminin	CATH (utative)
F	2.10.25.10	Mainly Beta	Ribbon	Laminin	Laminin	CATH (utative)
D	2.10.25.10	Mainly Beta	Ribbon	Laminin	Laminin	CATH (utative)
C	2.10.25.10	Mainly Beta	Ribbon	Laminin	Laminin	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C, D, F, H	PF08742	C8 domain (C8)	C8 domain	This domain contains 8 conserved cysteine residues, but this family only contains 7 of them to overlaps with other domains. It is found in disease-related proteins including von Willebrand factor, Alpha tectorin, Zonadhesin and Mucin. It is often fo ...	This domain contains 8 conserved cysteine residues, but this family only contains 7 of them to overlaps with other domains. It is found in disease-related proteins including von Willebrand factor, Alpha tectorin, Zonadhesin and Mucin. It is often found on proteins containing Pfam:PF00094 and Pfam:PF01826.	Domain
C, D, F, H	PF01826	Trypsin Inhibitor like cysteine rich domain (TIL)	Trypsin Inhibitor like cysteine rich domain	This family contains trypsin inhibitors as well as a domain found in many extracellular proteins. The domain typically contains ten cysteine residues that form five disulphide bonds. The cysteine residues that form the disulphide bonds are 1-7, 2-6, ...	This family contains trypsin inhibitors as well as a domain found in many extracellular proteins. The domain typically contains ten cysteine residues that form five disulphide bonds. The cysteine residues that form the disulphide bonds are 1-7, 2-6, 3-5, 4-10 and 8-9.	Domain
C, D, F, H	PF16164	VWA N-terminal (VWA_N2)	VWA N-terminal	-	Family
C, D, F, H	PF00094	von Willebrand factor type D domain (VWD)	von Willebrand factor type D domain	Swiss:P17554 contains a vwd domain. Its function is unrelated but the similarity is very strong by several methods. This domain is structurally homologous to the C-terminal domain of repulsive guidance molecules (RGM) despite low sequence identity [2 ...	Swiss:P17554 contains a vwd domain. Its function is unrelated but the similarity is very strong by several methods. This domain is structurally homologous to the C-terminal domain of repulsive guidance molecules (RGM) despite low sequence identity [2].	Domain
A, B, E, G	PF08742	C8 domain (C8)	C8 domain	This domain contains 8 conserved cysteine residues, but this family only contains 7 of them to overlaps with other domains. It is found in disease-related proteins including von Willebrand factor, Alpha tectorin, Zonadhesin and Mucin. It is often fo ...	This domain contains 8 conserved cysteine residues, but this family only contains 7 of them to overlaps with other domains. It is found in disease-related proteins including von Willebrand factor, Alpha tectorin, Zonadhesin and Mucin. It is often found on proteins containing Pfam:PF00094 and Pfam:PF01826.	Domain
A, B, E, G	PF01826	Trypsin Inhibitor like cysteine rich domain (TIL)	Trypsin Inhibitor like cysteine rich domain	This family contains trypsin inhibitors as well as a domain found in many extracellular proteins. The domain typically contains ten cysteine residues that form five disulphide bonds. The cysteine residues that form the disulphide bonds are 1-7, 2-6, ...	This family contains trypsin inhibitors as well as a domain found in many extracellular proteins. The domain typically contains ten cysteine residues that form five disulphide bonds. The cysteine residues that form the disulphide bonds are 1-7, 2-6, 3-5, 4-10 and 8-9.	Domain
A, B, E, G	PF00094	von Willebrand factor type D domain (VWD)	von Willebrand factor type D domain	Swiss:P17554 contains a vwd domain. Its function is unrelated but the similarity is very strong by several methods. This domain is structurally homologous to the C-terminal domain of repulsive guidance molecules (RGM) despite low sequence identity [2 ...	Swiss:P17554 contains a vwd domain. Its function is unrelated but the similarity is very strong by several methods. This domain is structurally homologous to the C-terminal domain of repulsive guidance molecules (RGM) despite low sequence identity [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, D, F, H	von Willebrand factor	protein binding binding enzyme binding protease binding collagen binding protein-containing complex binding protein-folding chaperone binding cell adhesion molecule binding integrin binding signaling receptor binding immunoglobulin binding identical protein 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 cell activation cellular process platelet activation 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 cell activation cellular process platelet activation cellular response to stimulus positive regulation of cell communication regulation of biological process regulation of signaling regulation of cellular process positive regulation of signal transduction signaling positive regulation of biological process positive regulation of intracellular signal transduction regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction regulation of response to stimulus regulation of cell communication signal transduction positive regulation of cellular process positive regulation of signaling cell adhesion cell-substrate adhesion	extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle Weibel-Palade body secretory granule clathrin-coated vesicle secretory vesicle coated vesicle cytoplasm cell periphery extracellular matrix external encapsulating structure platelet alpha granule vesicle lumen membrane-enclosed lumen cytoplasmic vesicle lumen secretory granule lumen intracellular organelle lumen organelle lumen platelet alpha granule lumen endoplasmic reticulum
A, B, E, G	von Willebrand antigen 2	protein binding binding enzyme binding protease binding collagen binding protein-containing complex binding protein-folding chaperone binding cell adhesion molecule binding integrin binding signaling receptor binding immunoglobulin binding identical protein 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 cell activation cellular process platelet activation 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 cell activation cellular process platelet activation cellular response to stimulus positive regulation of cell communication regulation of biological process regulation of signaling regulation of cellular process positive regulation of signal transduction signaling positive regulation of biological process positive regulation of intracellular signal transduction regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction regulation of response to stimulus regulation of cell communication signal transduction positive regulation of cellular process positive regulation of signaling cell adhesion cell-substrate adhesion	extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle Weibel-Palade body secretory granule clathrin-coated vesicle secretory vesicle coated vesicle cytoplasm cell periphery extracellular matrix external encapsulating structure platelet alpha granule vesicle lumen membrane-enclosed lumen cytoplasmic vesicle lumen secretory granule lumen intracellular organelle lumen organelle lumen platelet alpha granule lumen endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, D, F, H	IPR050780	Mucin/von Willebrand/Thrombospondin superfamily	Family
C, D, F, H	IPR002919	Trypsin Inhibitor-like, cysteine rich domain	Domain
C, D, F, H	IPR001007	VWFC domain	Domain
C, D, F, H	IPR037578	Von Willebrand factor	Family
C, D, F, H	IPR036465	von Willebrand factor A-like domain superfamily	Homologous Superfamily
C, D, F, H	IPR001846	von Willebrand factor, type D domain	Domain
C, D, F, H	IPR014853	VWF/SSPO/Zonadhesin-like, cysteine-rich domain	Domain
C, D, F, H	IPR032361	von Willebrand factor, VWA N-terminal domain	Domain
C, D, F, H	IPR036084	Serine protease inhibitor-like superfamily	Homologous Superfamily
C, D, F, H	IPR002035	von Willebrand factor, type A	Domain
C, D, F, H	IPR006207	Cystine knot, C-terminal	Domain
A, B, E, G	IPR050780	Mucin/von Willebrand/Thrombospondin superfamily	Family
A, B, E, G	IPR002919	Trypsin Inhibitor-like, cysteine rich domain	Domain
A, B, E, G	IPR001007	VWFC domain	Domain
A, B, E, G	IPR037578	Von Willebrand factor	Family
A, B, E, G	IPR036465	von Willebrand factor A-like domain superfamily	Homologous Superfamily
A, B, E, G	IPR001846	von Willebrand factor, type D domain	Domain
A, B, E, G	IPR014853	VWF/SSPO/Zonadhesin-like, cysteine-rich domain	Domain
A, B, E, G	IPR032361	von Willebrand factor, VWA N-terminal domain	Domain
A, B, E, G	IPR036084	Serine protease inhibitor-like superfamily	Homologous Superfamily
A, B, E, G	IPR002035	von Willebrand factor, type A	Domain
A, B, E, G	IPR006207	Cystine knot, C-terminal	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C, D, F, H	Pharos: P04275	von Willebrand disease 1 von Willebrand disease 2 von Willebrand disease 3 atrial fibrillation hypertensive disorder hereditary von Willebrand disease thrombotic disease intracranial thrombosis cardiovascular disease Liver Cirrhosis, Experimental congestive heart failure Down syndrome ovarian cancer drug-induced liver injury pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia von Willebrand disease 1 von Willebrand disease 2 von Willebrand disease 3 atrial fibrillation hypertensive disorder hereditary von Willebrand disease thrombotic disease intracranial thrombosis cardiovascular disease Liver Cirrhosis, Experimental congestive heart failure Down syndrome ovarian cancer drug-induced liver injury pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia gastric carcinoma peripheral neuropathy heart failure thrombocytopenia acquired von willebrand syndrome transitional cell carcinoma herpes zoster interstitial cystitis von Willebrand disease type 2A kidney disease von Willebrand disease type 2N lung adenocarcinoma coronary artery disease non-small cell lung carcinoma pancreatic intraductal papillary-mucinous carcinoma ductal breast carcinoma in situ thrombophilia adrenal cortex carcinoma thrombotic thrombocytopenic purpura ulcerative colitis angiodysplasia Bernard-Soulier syndrome von Willebrand disease type 2B breast carcinoma lung cancer medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm familial atrial fibrillation peripheral nervous system disease heart disease pulmonary embolism hemophilia A vascular disease atherosclerosis inborn carbohydrate metabolic disorder invasive ductal breast carcinoma von Willebrand disease type 2M cerebrovascular disorder lung carcinoma
A, B, E, G	Pharos: P04275	von Willebrand disease 1 von Willebrand disease 2 von Willebrand disease 3 atrial fibrillation hypertensive disorder hereditary von Willebrand disease thrombotic disease intracranial thrombosis cardiovascular disease Liver Cirrhosis, Experimental congestive heart failure Down syndrome ovarian cancer drug-induced liver injury pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia von Willebrand disease 1 von Willebrand disease 2 von Willebrand disease 3 atrial fibrillation hypertensive disorder hereditary von Willebrand disease thrombotic disease intracranial thrombosis cardiovascular disease Liver Cirrhosis, Experimental congestive heart failure Down syndrome ovarian cancer drug-induced liver injury pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia gastric carcinoma peripheral neuropathy heart failure thrombocytopenia acquired von willebrand syndrome transitional cell carcinoma herpes zoster interstitial cystitis von Willebrand disease type 2A kidney disease von Willebrand disease type 2N lung adenocarcinoma coronary artery disease non-small cell lung carcinoma pancreatic intraductal papillary-mucinous carcinoma ductal breast carcinoma in situ thrombophilia adrenal cortex carcinoma thrombotic thrombocytopenic purpura ulcerative colitis angiodysplasia Bernard-Soulier syndrome von Willebrand disease type 2B breast carcinoma lung cancer medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm familial atrial fibrillation peripheral nervous system disease heart disease pulmonary embolism hemophilia A vascular disease atherosclerosis inborn carbohydrate metabolic disorder invasive ductal breast carcinoma von Willebrand disease type 2M cerebrovascular disorder lung carcinoma