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- PDB-7q15: Crystal structure of FcRn and beta-2-microglobulin in complex wit... -
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Open data
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Basic information
Entry | Database: PDB / ID: 7q15 | ||||||
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Title | Crystal structure of FcRn and beta-2-microglobulin in complex with IgG1-Fc-MST-HN (efgartigimod) | ||||||
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Function / homology | ![]() IgG immunoglobulin transcytosis in epithelial cells mediated by FcRn immunoglobulin receptor / IgG binding / ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Pannecoucke, E. / Savvides, S.N. | ||||||
Funding support | 1items
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![]() | ![]() Title: The Fab region of IgG impairs the internalization pathway of FcRn upon Fc engagement. Authors: Brinkhaus, M. / Pannecoucke, E. / van der Kooi, E.J. / Bentlage, A.E.H. / Derksen, N.I.L. / Andries, J. / Balbino, B. / Sips, M. / Ulrichts, P. / Verheesen, P. / de Haard, H. / Rispens, T. / ...Authors: Brinkhaus, M. / Pannecoucke, E. / van der Kooi, E.J. / Bentlage, A.E.H. / Derksen, N.I.L. / Andries, J. / Balbino, B. / Sips, M. / Ulrichts, P. / Verheesen, P. / de Haard, H. / Rispens, T. / Savvides, S.N. / Vidarsson, G. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 450.1 KB | Display | ![]() |
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PDB format | ![]() | 365.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 7q3pC ![]() 1n0uS S: Starting model for refinement C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 37225.777 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Protein | ![]() Mass: 13732.547 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #3: Antibody | Mass: 25492.846 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #4: Polysaccharide | beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose- ...beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose | ![]() Source method: isolated from a genetically manipulated source #5: Polysaccharide | beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose- ...beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose | Type: oligosaccharide ![]() Source method: isolated from a genetically manipulated source Has ligand of interest | N | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.94 Å3/Da / Density % sol: 58.11 % |
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Crystal grow![]() | Temperature: 294 K / Method: vapor diffusion, sitting drop / pH: 7 / Details: 0.1 M Sodium Cacodylate pH 7 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 9M / Detector: PIXEL / Date: Mar 22, 2019 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 3.146→48.901 Å / Num. obs: 21510 / % possible obs: 90.4 % / Redundancy: 3.1 % / CC1/2: 0.942 / Rrim(I) all: 0.38 / Net I/σ(I): 4.2 |
Reflection shell | Resolution: 3.146→3.449 Å / Mean I/σ(I) obs: 1.1 / Num. unique obs: 1073 / CC1/2: 0.265 / Rrim(I) all: 0.0156 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: 1N0U Resolution: 3.301→48.9 Å / Cor.coef. Fo:Fc: 0.846 / Cor.coef. Fo:Fc free: 0.805 / Cross valid method: THROUGHOUT / SU Rfree Blow DPI: 0.578
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Displacement parameters | Biso mean: 63.19 Å2
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Refine analyze | Luzzati coordinate error obs: 0.54 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.301→48.9 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 3.301→3.49 Å
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Refinement TLS params. | Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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