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- PDB-7r23: Crystal structure of human Arc CTD in complex with two anti-Arc n... -
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Open data
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Basic information
Entry | Database: PDB / ID: 7r23 | ||||||
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Title | Crystal structure of human Arc CTD in complex with two anti-Arc nanobodies | ||||||
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![]() | STRUCTURAL PROTEIN / capsid / nanobody / Gag homology | ||||||
Function / homology | ![]() positive regulation of AMPA receptor activity / modulation of chemical synaptic transmission / mRNA binding Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Markusson, S. / Kursula, P. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Crystal structure of human Arc CTD in complex with two anti-Arc nanobodies Authors: Markusson, S. / Kursula, P. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 190.7 KB | Display | ![]() |
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PDB format | ![]() | 125.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 419.8 KB | Display | ![]() |
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Full document | ![]() | 423.9 KB | Display | |
Data in XML | ![]() | 9.6 KB | Display | |
Data in CIF | ![]() | 13.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6tn7S ![]() 6tnoS 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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1 |
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Unit cell |
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Components
#1: Protein | Mass: 21743.379 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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#2: Antibody | Mass: 14078.622 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
#3: Antibody | Mass: 13127.566 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
Has protein modification | Y |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.21 Å3/Da / Density % sol: 44.31 % |
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Crystal grow | Temperature: 281 K / Method: vapor diffusion, sitting drop / Details: 20% PEG3350, 0.2 M Na malonate, 0.2 M KBr |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Dec 4, 2020 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.033 Å / Relative weight: 1 |
Reflection | Resolution: 2.77→50 Å / Num. obs: 21261 / % possible obs: 99.6 % / Redundancy: 6.6 % / Biso Wilson estimate: 66.76 Å2 / CC1/2: 0.995 / Rrim(I) all: 0.251 / Net I/σ(I): 7.5 |
Reflection shell | Resolution: 2.77→2.84 Å / Redundancy: 6.1 % / Mean I/σ(I) obs: 0.6 / Num. unique obs: 849 / CC1/2: 0.324 / Rrim(I) all: 3.407 / % possible all: 99.9 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 6TNO,6TN7 Resolution: 2.77→42.99 Å / SU ML: 0.5141 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 34.7535 Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.1 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 83.55 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.77→42.99 Å
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Refine LS restraints |
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LS refinement shell |
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