+Open data
-Basic information
Entry | Database: PDB / ID: 7p4n | ||||||
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Title | NMR solution structure of the C6 domain of von Willebrand Factor | ||||||
Components | von Willebrand factor | ||||||
Keywords | BLOOD CLOTTING / von Willebrand Factor Haemostasis Thrombosis Blood Coagulation Extracellular protein | ||||||
Function / homology | Function and homology information Defective VWF binding to collagen type I / Enhanced cleavage of VWF variant by ADAMTS13 / Defective VWF cleavage by ADAMTS13 variant / Weibel-Palade body / Defective F8 binding to von Willebrand factor / Enhanced binding of GP1BA variant to VWF multimer:collagen / Defective binding of VWF variant to GPIb:IX:V / hemostasis / platelet alpha granule / Platelet Adhesion to exposed collagen ...Defective VWF binding to collagen type I / Enhanced cleavage of VWF variant by ADAMTS13 / Defective VWF cleavage by ADAMTS13 variant / Weibel-Palade body / Defective F8 binding to von Willebrand factor / Enhanced binding of GP1BA variant to VWF multimer:collagen / Defective binding of VWF variant to GPIb:IX:V / hemostasis / platelet alpha granule / Platelet Adhesion to exposed collagen / positive regulation of intracellular signal transduction / GP1b-IX-V activation signalling / p130Cas linkage to MAPK signaling for integrins / cell-substrate adhesion / Defective F8 cleavage by thrombin / Platelet Aggregation (Plug Formation) / immunoglobulin binding / GRB2:SOS provides linkage to MAPK signaling for Integrins / Integrin cell surface interactions / collagen binding / Intrinsic Pathway of Fibrin Clot Formation / Integrin signaling / extracellular matrix / platelet alpha granule lumen / Signaling by high-kinase activity BRAF mutants / MAP2K and MAPK activation / platelet activation / response to wounding / Signaling by RAF1 mutants / Signaling by moderate kinase activity BRAF mutants / Paradoxical activation of RAF signaling by kinase inactive BRAF / Signaling downstream of RAS mutants / Signaling by BRAF and RAF1 fusions / blood coagulation / integrin binding / Platelet degranulation / protein-folding chaperone binding / protease binding / collagen-containing extracellular matrix / cell adhesion / endoplasmic reticulum / extracellular space / extracellular exosome / extracellular region / identical protein binding Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / simulated annealing / torsion angle dynamics | ||||||
Authors | Hennig, J. / Chen, P.-C. / Simon, B. | ||||||
Citation | Journal: J.Struct.Biol. / Year: 2022 Title: Structure and dynamics of the von Willebrand Factor C6 domain. Authors: Chen, P.C. / Kutzki, F. / Mojzisch, A. / Simon, B. / Xu, E.R. / Aponte-Santamaria, C. / Horny, K. / Jeffries, C. / Schneppenheim, R. / Wilmanns, M. / Brehm, M.A. / Grater, F. / Hennig, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 7p4n.cif.gz | 527.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7p4n.ent.gz | 456.1 KB | Display | PDB format |
PDBx/mmJSON format | 7p4n.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/p4/7p4n ftp://data.pdbj.org/pub/pdb/validation_reports/p4/7p4n | HTTPS FTP |
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-Related structure data
Similar structure data | Similarity search - Function & homologyF&H Search |
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Other databases |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 8703.000 Da / Num. of mol.: 1 / Mutation: G2705R Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: VWF, F8VWF Production host: Escherichia coli 'BL21-Gold(DE3)pLysS AG' (bacteria) References: UniProt: P04275 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Type: solution Contents: 300 uM [U-13C; U-15N] von Willebrand Factor C6 domain, 20 mM None sodium phosphate, 90% H2O/10% D2O Label: 15N_13C_sample / Solvent system: 90% H2O/10% D2O | ||||||||||||
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Sample |
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Sample conditions | Ionic strength: 20 mM / Label: conditions_1 / pH: 6.5 / PH err: 0.05 / Pressure: 1.013 bar / Pressure err: 0.01 / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE III / Manufacturer: Bruker / Model: AVANCE III / Field strength: 600 MHz |
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-Processing
NMR software |
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Refinement |
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NMR representative | Selection criteria: target function | |||||||||||||||
NMR ensemble | Conformer selection criteria: all calculated structures submitted Conformers calculated total number: 20 / Conformers submitted total number: 20 |