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Open data
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Basic information
Entry | Database: PDB / ID: 5y2x | ||||||
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Title | Crystal structure of apo-HaloTag (M175C) | ||||||
![]() | Haloalkane dehalogenase | ||||||
![]() | HYDROLASE / halotag / haloalkane dehalogenase | ||||||
Function / homology | ![]() haloalkane dehalogenase / haloalkane dehalogenase activity / response to toxic substance Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Lee, H. / Kang, M. / Rhee, H. / Lee, C. | ||||||
![]() | ![]() Title: Structure-guided synthesis of a protein-based fluorescent sensor for alkyl halides Authors: Kang, M.G. / Lee, H. / Kim, B.H. / Dunbayev, Y. / Seo, J.K. / Lee, C. / Rhee, H.W. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 79.3 KB | Display | ![]() |
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PDB format | ![]() | 56.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 426.9 KB | Display | ![]() |
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Full document | ![]() | 427.2 KB | Display | |
Data in XML | ![]() | 14.8 KB | Display | |
Data in CIF | ![]() | 21.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5y2yC ![]() 4kafS 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: Protein | Mass: 33716.398 Da / Num. of mol.: 1 / Fragment: UNP residues 2-293 Mutation: S2A, L47V, S58T, D78G, Y87F, L88M, C128F, A155T, E160K, A167V, A172T, K175C, C176G, K195N, A224E, N227D, E257K, T264A, H272N, Y273L, P291S, A292T Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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#2: Chemical | ChemComp-CL / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.39 Å3/Da / Density % sol: 48.61 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop Details: 25% PEG 20K, 0.1M Tris pH 8.2, 200mM MgCl2, 5% butanol. |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() |
Detector | Type: ADSC QUANTUM 270 / Detector: CCD / Date: Dec 14, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.02→50 Å / Num. obs: 22255 / % possible obs: 99.5 % / Redundancy: 6.1 % / Rmerge(I) obs: 0.094 / Net I/σ(I): 26.4 |
Reflection shell | Rmerge(I) obs: 0.334 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 4KAF Resolution: 2.02→34.44 Å / Cross valid method: FREE R-VALUE
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Refinement step | Cycle: LAST / Resolution: 2.02→34.44 Å
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