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- PDB-7coe: Crystal structure of Receptor binding domain of MERS-CoV and KNIH... -
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Open data
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Basic information
Entry | Database: PDB / ID: 7coe | ||||||
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Title | Crystal structure of Receptor binding domain of MERS-CoV and KNIH90-F1 Fab complex | ||||||
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![]() | IMMUNE SYSTEM / RBD / Fab / complex | ||||||
Function / homology | ![]() : / endocytosis involved in viral entry into host cell / host cell endoplasmic reticulum-Golgi intermediate compartment membrane / membrane => GO:0016020 / receptor-mediated virion attachment to host cell / fusion of virus membrane with host plasma membrane / fusion of virus membrane with host endosome membrane / viral envelope / host cell plasma membrane / virion membrane Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Lee, J.Y. / Song, J.Y. / Lee, H.S. / Hong, E. / Jang, T.H. | ||||||
![]() | ![]() Title: The structure of a novel antibody against the spike protein inhibits Middle East respiratory syndrome coronavirus infections. Authors: Jang, T.H. / Park, W.J. / Lee, H. / Woo, H.M. / Lee, S.Y. / Kim, K.C. / Kim, S.S. / Hong, E. / Song, J. / Lee, J.Y. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 567.4 KB | Display | ![]() |
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PDB format | ![]() | 445.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.4 MB | Display | ![]() |
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Full document | ![]() | 1.4 MB | Display | |
Data in XML | ![]() | 56.4 KB | Display | |
Data in CIF | ![]() | 83.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 4zs6S S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Components
-Antibody , 2 types, 4 molecules HBLC
#1: Antibody | Mass: 25216.145 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() #2: Antibody | Mass: 23259.771 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() |
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-Protein / Sugars , 2 types, 6 molecules AD![](data/chem/img/NAG.gif)
![](data/chem/img/NAG.gif)
#3: Protein | Mass: 24429.520 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Production host: ![]() ![]() #5: Sugar | ChemComp-NAG / |
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-Non-polymers , 2 types, 999 molecules ![](data/chem/img/EDO.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/HOH.gif)
#4: Chemical | ChemComp-EDO / #6: Water | ChemComp-HOH / | |
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-Details
Has ligand of interest | Y |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.92 Å3/Da / Density % sol: 57.9 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, hanging drop / pH: 6.3 / Details: 0.1M MES monohydrate pH 6.3, 15%(w/v) PEG 20000 |
-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: Jun 20, 2019 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9793 Å / Relative weight: 1 |
Reflection | Resolution: 2.05→44.95 Å / Num. obs: 103522 / % possible obs: 98.95 % / Redundancy: 7 % / CC1/2: 0.956 / Net I/σ(I): 14.97 |
Reflection shell | Resolution: 2.05→2.123 Å / Num. unique obs: 9762 / CC1/2: 0.896 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 4ZS6 Resolution: 2.05→44.95 Å / Cross valid method: FREE R-VALUE Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Displacement parameters | Biso mean: 38.45 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.05→44.95 Å
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Refine LS restraints |
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