7WN6 | pdb_00007wn6

Cryo-EM structure of VWF D'D3 dimer (R1136M/E1143M mutant) complexed with D1D2 at 3.29 angstron resolution (2 units)

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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 [auth D]	SCOP2B Superfamily	von Willebrand factor type D domain-like	8107359	3002872	SCOP2B (2022-06-29)
G [auth C]	SCOP2B Superfamily	von Willebrand factor type D domain-like	8107359	3002872	SCOP2B (2022-06-29)
D [auth H]	SCOP2B Superfamily	von Willebrand factor type D domain-like	8107359	3002872	SCOP2B (2022-06-29)
B [auth F]	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 [auth D]	PhnJ	e7wn6D1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PhnJ	ECOD (develop294)
G [auth C]	PhnJ	e7wn6C1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PhnJ	ECOD (develop294)
D [auth H]	PhnJ	e7wn6H1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PhnJ	ECOD (develop294)
B [auth F]	PhnJ	e7wn6F1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PhnJ	ECOD (develop294)
F [auth G]	PhnJ	e7wn6G1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PhnJ	ECOD (develop294)
E	PhnJ	e7wn6E1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PhnJ	ECOD (develop294)
C [auth B]	PhnJ	e7wn6B1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PhnJ	ECOD (develop294)
A	PhnJ	e7wn6A1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PhnJ	ECOD (develop294)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth F], D [auth H], G [auth C], H [auth D]	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
B [auth F], D [auth H], G [auth C], H [auth D]	PF25962	Otogelin-like/Mucin TIL domain (TIL_OTOGL_Mucin)	Otogelin-like/Mucin TIL domain	This entry describes a trypsin inhibitor-like (TIL) cysteine rich domain found in Otogelin, Otogelin-like proteins and Mucin proteins from eukaryotes. Otogelin is a structurally complex glycoprotein with specialised roles in the inner ear membranes. ...	This entry describes a trypsin inhibitor-like (TIL) cysteine rich domain found in Otogelin, Otogelin-like proteins and Mucin proteins from eukaryotes. Otogelin is a structurally complex glycoprotein with specialised roles in the inner ear membranes. While it shares some structural similarities with mucins, including von Willebrand factor-like domains and cysteine-rich regions, it differs in its glycosylation patterns and functions. Otogelin undergoes primarily N-glycosylation and plays a critical role in the organisation of the extracellular matrix within the inner ear. In contrast, mucins like MUC5B and MUC19 are heavily O-glycosylated, gel-forming proteins that provide lubrication and protective barriers on mucosal epithelial surfaces [1-5]. The TIL domain is characterised by the presence of five disulfide bonds (two of which are located on either side of the reactive site) in a single small protein domain of 61-62 residues [6].	Domain
B [auth F], D [auth H], G [auth C], H [auth D]	PF16164	VWA N-terminal (VWA_N2)	VWA N-terminal	-	Family
B [auth F], D [auth H], G [auth C], H [auth D]	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
B [auth F], D [auth H], G [auth C], H [auth D]	PF23244	Von Willebrand factor-like domain (VWF)	Von Willebrand factor-like domain	This domain is found in human von Willebrand factor (vWF) and similar proteins mainly found in animals. vWF is important in the maintenance of hemostasis and acts as a chaperone for coagulation factor VIII, delivering it to the site of injury. This d ...	This domain is found in human von Willebrand factor (vWF) and similar proteins mainly found in animals. vWF is important in the maintenance of hemostasis and acts as a chaperone for coagulation factor VIII, delivering it to the site of injury. This domain adopts an all-beta structure [1]. It is often found associated to Pfam:PF00094.	Domain
A, C [auth B], E, F [auth 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, C [auth B], E, F [auth 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, C [auth B], E, F [auth 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
B [auth F], D [auth H], G [auth C], H [auth D]	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 structural molecule activity extracellular matrix structural constituent 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, C [auth B], E, F [auth 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 structural molecule activity extracellular matrix structural constituent 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
B [auth F], D [auth H], G [auth C], H [auth D]	IPR050780	Mucin/von Willebrand/Thrombospondin superfamily	Family
B [auth F], D [auth H], G [auth C], H [auth D]	IPR002919	Trypsin Inhibitor-like, cysteine rich domain	Domain
B [auth F], D [auth H], G [auth C], H [auth D]	IPR001007	VWFC domain	Domain
B [auth F], D [auth H], G [auth C], H [auth D]	IPR037578	Von Willebrand factor	Family
B [auth F], D [auth H], G [auth C], H [auth D]	IPR036465	von Willebrand factor A-like domain superfamily	Homologous Superfamily
B [auth F], D [auth H], G [auth C], H [auth D]	IPR001846	von Willebrand factor, type D domain	Domain
B [auth F], D [auth H], G [auth C], H [auth D]	IPR014853	VWF/SSPO/Zonadhesin-like, cysteine-rich domain	Domain
B [auth F], D [auth H], G [auth C], H [auth D]	IPR032361	von Willebrand factor, VWA N-terminal domain	Domain
B [auth F], D [auth H], G [auth C], H [auth D]	IPR036084	Serine protease inhibitor-like superfamily	Homologous Superfamily
B [auth F], D [auth H], G [auth C], H [auth D]	IPR058753	Otogelin-like/Mucin, TIL domain	Domain
B [auth F], D [auth H], G [auth C], H [auth D]	IPR002035	von Willebrand factor, type A	Domain
B [auth F], D [auth H], G [auth C], H [auth D]	IPR006207	Cystine knot, C-terminal	Domain
A, C [auth B], E, F [auth G]	IPR050780	Mucin/von Willebrand/Thrombospondin superfamily	Family
A, C [auth B], E, F [auth G]	IPR002919	Trypsin Inhibitor-like, cysteine rich domain	Domain
A, C [auth B], E, F [auth G]	IPR001007	VWFC domain	Domain
A, C [auth B], E, F [auth G]	IPR037578	Von Willebrand factor	Family
A, C [auth B], E, F [auth G]	IPR036465	von Willebrand factor A-like domain superfamily	Homologous Superfamily
A, C [auth B], E, F [auth G]	IPR001846	von Willebrand factor, type D domain	Domain
A, C [auth B], E, F [auth G]	IPR014853	VWF/SSPO/Zonadhesin-like, cysteine-rich domain	Domain
A, C [auth B], E, F [auth G]	IPR032361	von Willebrand factor, VWA N-terminal domain	Domain
A, C [auth B], E, F [auth G]	IPR036084	Serine protease inhibitor-like superfamily	Homologous Superfamily
A, C [auth B], E, F [auth G]	IPR058753	Otogelin-like/Mucin, TIL domain	Domain
A, C [auth B], E, F [auth G]	IPR002035	von Willebrand factor, type A	Domain
A, C [auth B], E, F [auth G]	IPR006207	Cystine knot, C-terminal	Domain

Pharos: Disease Associations Pharos Homepage Annotation

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