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Open data
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Basic information
Entry | Database: PDB / ID: 6vrp | ||||||
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Title | Reverse Transcriptase Diabody with R83T Mutation | ||||||
![]() | Single-chain Fv | ||||||
![]() | PROTEIN BINDING / diabody / immunoglobin / reverse transcriptase | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Chesterman, C. / Arnold, E. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Co-crystallization with diabodies: A case study for the introduction of synthetic symmetry. Authors: Chesterman, C. / Arnold, E. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 319.8 KB | Display | ![]() |
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PDB format | ![]() | 233.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 277.4 KB | Display | ![]() |
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Full document | ![]() | 277.3 KB | Display | |
Data in XML | ![]() | 1.5 KB | Display | |
Data in CIF | ![]() | 8.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6vugC ![]() 6vunC ![]() 6vuoC ![]() 6vupC ![]() 7kbmC ![]() 7kboC ![]() 7kbpC ![]() 4x4xS S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Antibody | Mass: 26401.154 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | ChemComp-EDO / #3: Chemical | ChemComp-SO4 / #4: Water | ChemComp-HOH / | Has ligand of interest | N | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.29 Å3/Da / Density % sol: 46.3 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 8 / Details: 0.2 M Ammonium Sulfate, 20% PEG 3350 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 S 6M / Detector: PIXEL / Date: Nov 5, 2018 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9794 Å / Relative weight: 1 |
Reflection | Resolution: 1.6→50 Å / Num. obs: 61848 / % possible obs: 99.9 % / Redundancy: 6.6 % / Biso Wilson estimate: 12.65 Å2 / Rmerge(I) obs: 0.046 / Rrim(I) all: 0.05 / Net I/σ(I): 39.14 |
Reflection shell | Resolution: 1.6→1.63 Å / Redundancy: 6.8 % / Rmerge(I) obs: 0.368 / Num. unique obs: 3029 / Rrim(I) all: 0.398 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 4X4X Resolution: 1.6→43.8 Å / SU ML: 0.1224 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 16.4797 / Stereochemistry target values: 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: 20.1 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.6→43.8 Å
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Refine LS restraints |
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LS refinement shell |
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