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Open data
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Basic information
Entry | Database: PDB / ID: 5mqq | ||||||
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Title | Transcriptional repressor AmtR of corynebacterium glutamicum | ||||||
![]() | AmtR protein | ||||||
![]() | TRANSCRIPTION / transcription regulator / nitrogen regulation | ||||||
Function / homology | Bacterial regulatory proteins, tetR family / DNA-binding HTH domain, TetR-type / TetR-type HTH domain profile. / Homeobox-like domain superfamily / DNA binding / AmtR protein / Repressor of the high-affinity (Methyl) ammonium uptake system![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Sevvana, M. / Hasselt, K. / Muller, Y.A. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Similarities in the structure of the transcriptional repressor AmtR in two different space groups suggest a model for the interaction with GlnK. Authors: Sevvana, M. / Hasselt, K. / Grau, F.C. / Burkovski, A. / Muller, Y.A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 250.3 KB | Display | ![]() |
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PDB format | ![]() | 202.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 477.7 KB | Display | ![]() |
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Full document | ![]() | 489 KB | Display | |
Data in XML | ![]() | 47.6 KB | Display | |
Data in CIF | ![]() | 67.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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3 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 22942.072 Da / Num. of mol.: 6 Source method: isolated from a genetically manipulated source Details: First three residues were not modeled due to missing electron density. Last two residues were not modeled due to missing electron density. First residue is not A, but K. Side chain could not ...Details: First three residues were not modeled due to missing electron density. Last two residues were not modeled due to missing electron density. First residue is not A, but K. Side chain could not be built due to missing electron density. Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.25 Å3/Da / Density % sol: 45.29 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 5.8 Details: AmtR (12 mg/ml) in 20 mM Tris HCl, pH 8.0, 0.2 M NaCl Crystals obtained under the conditions: 0.1 M Bis-Tris pH 5.8, 20 % PEG 3350 and 0.2 M (NH4)2SO4 with a protein to drop ratio of 1:1 microliters |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: RAYONIX MX-225 / Detector: CCD / Date: Dec 4, 2010 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.91841 Å / Relative weight: 1 |
Reflection | Resolution: 2.09→33.24 Å / Num. obs: 73411 / % possible obs: 98.8 % / Redundancy: 4.05 % / Biso Wilson estimate: 30.7 Å2 / Rmerge(I) obs: 0.086 / Net I/σ(I): 13.5 |
Reflection shell | Resolution: 2.09→2.22 Å / Redundancy: 3.86 % / Rmerge(I) obs: 0.751 / Mean I/σ(I) obs: 2.6 / % possible all: 95.9 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.093→33.24 Å
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Refine LS restraints |
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LS refinement shell |
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