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- PDB-7kym: Crystal structure of the MarR family transcriptional regulator fr... -
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Open data
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Basic information
Entry | Database: PDB / ID: 7kym | ||||||
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Title | Crystal structure of the MarR family transcriptional regulator from Bradyrhizobium japonicum | ||||||
![]() | MarR family transcriptional regulator | ||||||
![]() | DNA BINDING PROTEIN / Transcriptional Regulator / Ligand Binding | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Walton, W.G. / Redinbo, M.R. / Dangl, J.L. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Diverse MarR bacterial regulators of auxin catabolism in the plant microbiome. Authors: Conway, J.M. / Walton, W.G. / Salas-Gonzalez, I. / Law, T.F. / Lindberg, C.A. / Crook, L.E. / Kosina, S.M. / Fitzpatrick, C.R. / Lietzan, A.D. / Northen, T.R. / Jones, C.D. / Finkel, O.M. / ...Authors: Conway, J.M. / Walton, W.G. / Salas-Gonzalez, I. / Law, T.F. / Lindberg, C.A. / Crook, L.E. / Kosina, S.M. / Fitzpatrick, C.R. / Lietzan, A.D. / Northen, T.R. / Jones, C.D. / Finkel, O.M. / Redinbo, M.R. / Dangl, J.L. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 83 KB | Display | ![]() |
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PDB format | ![]() | 59.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 449.4 KB | Display | ![]() |
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Full document | ![]() | 450.4 KB | Display | |
Data in XML | ![]() | 16 KB | Display | |
Data in CIF | ![]() | 23.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7kfoC ![]() 7kfqC ![]() 7kfsC ![]() 7kh3C ![]() 7kigC ![]() 7kjlC ![]() 7kjqC ![]() 7kk0C ![]() 7kkcC ![]() 7kkiC ![]() 7krhC ![]() 7kuaC ![]() 7l19C ![]() 7l1iC ![]() 3cjnS 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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1 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 21214.062 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | #3: Water | ChemComp-HOH / | Has ligand of interest | N | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 6.5 Details: 0.1 M Bis-Tris: HCl, pH 6.5, 20 % (w/v) PEG MME 5000 |
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-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: Dec 5, 2020 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.0332 Å / Relative weight: 1 |
Reflection | Resolution: 1.5→47.26 Å / Num. obs: 44118 / % possible obs: 99.07 % / Redundancy: 2 % / CC1/2: 1 / Net I/σ(I): 16.2 |
Reflection shell | Resolution: 1.5→1.554 Å / Num. unique obs: 4182 / CC1/2: 0.839 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 3CJN Resolution: 1.5→47.26 Å / Cross valid method: FREE R-VALUE Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Displacement parameters | Biso mean: 24.25 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.5→47.26 Å
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Refine LS restraints |
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