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- PDB-3anp: Crystal structure of Thermus thermophilus FadR, a TetR familly tr... -
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Open data
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Basic information
Entry | Database: PDB / ID: 3anp | ||||||
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Title | Crystal structure of Thermus thermophilus FadR, a TetR familly transcriptional repressor, in complex with lauroyl-CoA. | ||||||
![]() | Transcriptional repressor, TetR family | ||||||
![]() | TRANSCRIPTION / All Alpha Protein / Transcriptional Repressor / DNA / Acyl-CoA | ||||||
Function / homology | ![]() transcription cis-regulatory region binding / DNA-binding transcription factor activity Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Agari, Y. / Agari, K. / Sakamoto, K. / Kuramitsu, S. / Shinkai, A. | ||||||
![]() | ![]() Title: TetR-family transcriptional repressor Thermus thermophilus FadR controls fatty acid degradation. Authors: Agari, Y. / Agari, K. / Sakamoto, K. / Kuramitsu, S. / Shinkai, 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 | ![]() | 184.6 KB | Display | ![]() |
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PDB format | ![]() | 154.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 23711.828 Da / Num. of mol.: 4 / Fragment: UNP Residues 2-203 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Chemical | #3: Chemical | ChemComp-DAO / | #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal |
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Crystal grow |
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-Data collection
Diffraction | Mean temperature: 100 K | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Diffraction source | Source: ![]() ![]() ![]() | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Feb 23, 2009 Details: vertically bent two dimensional focusing mirror coated in Rhodium | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation | Monochromator: Fixed exit Si double crystal monochromator / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection | Redundancy: 6.6 % / Av σ(I) over netI: 33.4 / Number: 347357 / Rmerge(I) obs: 0.09 / Χ2: 1.41 / D res high: 2.25 Å / D res low: 50 Å / Num. obs: 53003 / % possible obs: 98.1 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Diffraction reflection shell |
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Reflection | Resolution: 1.95→50 Å / Num. all: 81796 / Num. obs: 81796 / % possible obs: 99.1 % / Redundancy: 7.2 % / Biso Wilson estimate: 21.8 Å2 / Rmerge(I) obs: 0.075 / Χ2: 1.302 / Net I/σ(I): 11.1 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection shell | Diffraction-ID: 1
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-Phasing
Phasing | Method: ![]() | |||||||||||||||||||||||||||||||||||||||||||||||||
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Phasing dm | FOM : 0.65 / FOM acentric: 0.65 / FOM centric: 0.68 / Reflection: 48664 / Reflection acentric: 44564 / Reflection centric: 4100 | |||||||||||||||||||||||||||||||||||||||||||||||||
Phasing dm shell |
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Processing
Software |
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Refinement | Method to determine structure: ![]()
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 53.9792 Å2 / ksol: 0.37 e/Å3 | ||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 90.4 Å2 / Biso mean: 25.0904 Å2 / Biso min: 8.02 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.95→26.09 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.95→2.07 Å / Rfactor Rfree error: 0.008 / Total num. of bins used: 6
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Xplor file |
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