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Open data
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Basic information
Entry | Database: PDB / ID: 7q6c | ||||||
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Title | complement C6 FIM1-2 bound to CP010 antibody | ||||||
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![]() | IMMUNE SYSTEM / complement antibody terminal pathway | ||||||
Function / homology | ![]() Terminal pathway of complement / membrane attack complex / complement activation / complement activation, classical pathway / Regulation of Complement cascade / positive regulation of immune response / in utero embryonic development / killing of cells of another organism / innate immune response / extracellular space ...Terminal pathway of complement / membrane attack complex / complement activation / complement activation, classical pathway / Regulation of Complement cascade / positive regulation of immune response / in utero embryonic development / killing of cells of another organism / innate immune response / extracellular space / extracellular exosome / extracellular region / plasma membrane Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Olesen, H.G. / Andersen, G.R. | ||||||
Funding support | 1items
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![]() | ![]() Title: Development, Characterization, and in vivo Validation of a Humanized C6 Monoclonal Antibody that Inhibits the Membrane Attack Complex. Authors: Gytz Olesen, H. / Michailidou, I. / Zelek, W.M. / Vreijling, J. / Ruizendaal, P. / de Klein, F. / Marquart, J.A. / Kuipers, T.B. / Mei, H. / Zhang, Y. / Ahasan, M. / Johnson, K.K. / Wang, Y. ...Authors: Gytz Olesen, H. / Michailidou, I. / Zelek, W.M. / Vreijling, J. / Ruizendaal, P. / de Klein, F. / Marquart, J.A. / Kuipers, T.B. / Mei, H. / Zhang, Y. / Ahasan, M. / Johnson, K.K. / Wang, Y. / Morgan, B.P. / van Dijk, M. / Fluiter, K. / Andersen, G.R. / Baas, F. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 489 KB | Display | ![]() |
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PDB format | ![]() | 337.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 455.2 KB | Display | ![]() |
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Full document | ![]() | 458.4 KB | Display | |
Data in XML | ![]() | 26.3 KB | Display | |
Data in CIF | ![]() | 37.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6andS S: Starting model for refinement |
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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
-Protein , 1 types, 1 molecules A
#1: Protein | Mass: 18478.031 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() |
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-Antibody , 3 types, 3 molecules HKL
#2: Antibody | Mass: 23490.137 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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#3: Antibody | Mass: 13375.629 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
#4: Antibody | Mass: 23851.471 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
-Non-polymers , 2 types, 129 molecules ![](data/chem/img/ACT.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/HOH.gif)
#5: Chemical | ChemComp-ACT / |
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#6: Water | ChemComp-HOH / |
-Details
Has ligand of interest | N |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.27 Å3/Da / Density % sol: 62.37 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion / pH: 6.4 Details: 112 mM calcium acetate, 56 mM sodium cacodylate pH 6.4, 8.5% PEG8000 and 16% glycerol |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 16M / Detector: PIXEL / Date: Feb 20, 2020 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9762 Å / Relative weight: 1 |
Reflection | Resolution: 2.29274→100.826 Å / Num. obs: 45105 / % possible obs: 97.2 % / Redundancy: 3.46 % / Biso Wilson estimate: 49.63 Å2 / CC1/2: 0.999 / Rmerge(I) obs: 0.063 / Rrim(I) all: 0.075 / Net I/σ(I): 12.08 |
Reflection shell | Resolution: 2.29274→2.43 Å / Num. unique obs: 6899 / CC1/2: 0.399 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 6AND Resolution: 2.29274→44.45 Å / SU ML: 0.3214 / Cross valid method: FREE R-VALUE / σ(F): 1.46 / Phase error: 25.6852 Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 60.62 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.29274→44.45 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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