4C2B | pdb_00004c2b

Crystal Structure of High-Affinity von Willebrand Factor A1 domain with Disulfide Mutation in Complex with High Affinity GPIb alpha

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
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
H	d4c2bh_	Alpha and beta proteins (a/b)	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	L domain-like	Ngr ectodomain-like	automated matches	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
F	d4c2bf_	Alpha and beta proteins (a/b)	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	L domain-like	Ngr ectodomain-like	automated matches	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d4c2bd_	Alpha and beta proteins (a/b)	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	L domain-like	Ngr ectodomain-like	automated matches	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d4c2bb_	Alpha and beta proteins (a/b)	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	L domain-like	Ngr ectodomain-like	automated matches	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
G	d4c2bg_	Alpha and beta proteins (a/b)	vWA-like	vWA-like	Integrin A (or I) domain	automated matches	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E	d4c2be_	Alpha and beta proteins (a/b)	vWA-like	vWA-like	Integrin A (or I) domain	automated matches	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d4c2bc_	Alpha and beta proteins (a/b)	vWA-like	vWA-like	Integrin A (or I) domain	automated matches	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d4c2ba_	Alpha and beta proteins (a/b)	vWA-like	vWA-like	Integrin A (or I) domain	automated matches	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
H	SCOP2B Superfamily	L domain-like	8034703	3001010	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	L domain-like	8034703	3001010	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	L domain-like	8034703	3001010	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	L domain-like	8034703	3001010	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	vWA-like	8032264	3000832	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	vWA-like	8032264	3000832	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	vWA-like	8032264	3000832	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	vWA-like	8032264	3000832	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		e4c2bH1	A: Rossmann-like	X: Rossmann-related	H: Nucleotide-binding domain	T:	F:	ECOD (20:10:01)
F		e4c2bF1	A: Rossmann-like	X: Rossmann-related	H: Nucleotide-binding domain	T:	F:	ECOD (20:10:01)
D		e4c2bD1	A: Rossmann-like	X: Rossmann-related	H: Nucleotide-binding domain	T:	F:	ECOD (20:10:01)
B		e4c2bB1	A: Rossmann-like	X: Rossmann-related	H: Nucleotide-binding domain	T:	F:	ECOD (20:10:01)
G		e4c2bG1	A: Rossmann-like	X: Rossmann-related	H: Nucleotide-binding domain	T:	F:	ECOD (20:10:01)
E		e4c2bE1	A: Rossmann-like	X: Rossmann-related	H: Nucleotide-binding domain	T:	F:	ECOD (20:10:01)
C		e4c2bC1	A: Rossmann-like	X: Rossmann-related	H: Nucleotide-binding domain	T:	F:	ECOD (20:10:01)
A		e4c2bA1	A: Rossmann-like	X: Rossmann-related	H: Nucleotide-binding domain	T:	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (4.3.0)
F	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (4.3.0)
D	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (4.3.0)
B	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (4.3.0)
G	3.40.50.410	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	von Willebrand factor, type A domain	CATH (4.3.0)
E	3.40.50.410	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	von Willebrand factor, type A domain	CATH (4.3.0)
C	3.40.50.410	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	von Willebrand factor, type A domain	CATH (4.3.0)
A	3.40.50.410	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	von Willebrand factor, type A domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, D, F, H	PF13855	Leucine rich repeat (LRR_8)	Leucine rich repeat	-	Repeat
B, D, F, H	PF01462	Leucine rich repeat N-terminal domain (LRRNT)	Leucine rich repeat N-terminal domain	-	Family
A, C, E, G	PF00092	von Willebrand factor type A domain (VWA)	von Willebrand factor type A domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D, F, H	PLATELET GLYCOPROTEIN IB ALPHA CHAIN	molecular transducer activity signaling receptor activity peptide receptor activity G protein-coupled receptor activity thrombin-activated receptor activity proteinase-activated receptor activity G protein-coupled peptide receptor activity transmembrane signaling receptor activity	multicellular organismal process regulation of body fluid levels wound healing response to stimulus cell activation hemostasis biological regulation blood coagulation response to stress coagulation cellular process regulation of biological quality response to wounding platelet activation multicellular organismal process regulation of body fluid levels wound healing response to stimulus cell activation hemostasis biological regulation blood coagulation response to stress coagulation cellular process regulation of biological quality response to wounding platelet activation developmental process cellular developmental process hemopoiesis megakaryocyte differentiation cell development myeloid cell differentiation cell differentiation megakaryocyte development anatomical structure development myeloid cell development cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway signaling signal transduction cell communication anatomical structure morphogenesis cell morphogenesis calcium ion transmembrane import into cytosol transport monoatomic ion transmembrane transport establishment of localization calcium ion transport metal ion transport monoatomic cation transmembrane transport transmembrane transport release of sequestered calcium ion into cytosol localization monoatomic ion transport monoatomic cation transport calcium ion transmembrane transport cell adhesion regulation of response to external stimulus negative regulation of biological process regulation of response to wounding regulation of coagulation regulation of response to stress regulation of multicellular organismal process regulation of hemostasis negative regulation of response to stimulus negative regulation of wound healing regulation of blood coagulation negative regulation of blood coagulation response to external stimulus negative regulation of response to wounding negative regulation of hemostasis fibrinolysis negative regulation of coagulation regulation of response to stimulus negative regulation of response to external stimulus regulation of wound healing negative regulation of multicellular organismal process protein maturation blood coagulation, intrinsic pathway blood coagulation, fibrin clot formation protein metabolic process protein activation cascade primary metabolic process gene expression macromolecule biosynthetic process biosynthetic process metabolic process macromolecule metabolic process positive regulation of biological process regulation of cell activation positive regulation of platelet activation positive regulation of cell activation positive regulation of cellular process regulation of platelet activation positive regulation of multicellular organismal process	protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex glycoprotein Ib-IX-V complex receptor complex glycoprotein complex cell periphery cellular anatomical structure plasma membrane signaling receptor complex cell surface external side of plasma membrane side of membrane protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex glycoprotein Ib-IX-V complex receptor complex glycoprotein complex cell periphery cellular anatomical structure plasma membrane signaling receptor complex cell surface external side of plasma membrane side of membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle
A, C, E, G	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

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D, F, H	IPR000372	Leucine-rich repeat N-terminal domain	Domain
B, D, F, H	IPR001611	Leucine-rich repeat	Repeat
B, D, F, H	IPR003591	Leucine-rich repeat, typical subtype	Repeat
B, D, F, H	IPR032675	Leucine-rich repeat domain superfamily	Homologous Superfamily
B, D, F, H	IPR000483	Cysteine-rich flanking region, C-terminal	Domain
A, C, E, G	IPR050780	Mucin/von Willebrand/Thrombospondin superfamily	Family
A, C, E, G	IPR002919	Trypsin Inhibitor-like, cysteine rich domain	Domain
A, C, E, G	IPR001007	VWFC domain	Domain
A, C, E, G	IPR037578	Von Willebrand factor	Family
A, C, E, G	IPR036465	von Willebrand factor A-like domain superfamily	Homologous Superfamily
A, C, E, G	IPR001846	von Willebrand factor, type D domain	Domain
A, C, E, G	IPR014853	VWF/SSPO/Zonadhesin-like, cysteine-rich domain	Domain
A, C, E, G	IPR032361	von Willebrand factor, VWA N-terminal domain	Domain
A, C, E, G	IPR036084	Serine protease inhibitor-like superfamily	Homologous Superfamily
A, C, E, G	IPR058753	Otogelin-like/Mucin, TIL domain	Domain
A, C, E, G	IPR002035	von Willebrand factor, type A	Domain
A, C, E, G	IPR006207	Cystine knot, C-terminal	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B, D, F, H	Pharos: P07359	Bernard-Soulier syndrome Bernard-Soulier syndrome, type A2, autosomal dominant pseudo-von Willebrand disease nonarteritic anterior ischemic optic neuropathy, susceptibility to thrombotic disease hypertensive disorder Von Willebrand disease, platelet type attention deficit hyperactivity disorder, inattentive type brain aneurysm hereditary von Willebrand disease non-arteritic anterior ischemic optic neuropathy thrombocytopenia osteosarcoma
A, C, 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 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 von Willebrand disease type 2N lung adenocarcinoma 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 cerebrovascular disorder lung carcinoma

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.