+Open data
-Basic information
Entry | Database: PDB / ID: 2f2e | ||||||
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Title | Crystal Structure of PA1607, a Putative Transcription Factor | ||||||
Components | PA1607 | ||||||
Keywords | DNA BINDING PROTEIN/STRUCTURAL GENOMICS / Transcription factor / helix-trun-helix / APC5613 / structural genomics / PSI / Protein Structure Initiative / Midwest Center for Structural Genomics / MCSG / DNA BINDING PROTEIN-STRUCTURAL GENOMICS COMPLEX | ||||||
Function / homology | Function and homology information Helix-turn-helix, HxlR type / HxlR-like helix-turn-helix / HxlR-type HTH domain profile. / Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain / Arc Repressor Mutant, subunit A / Winged helix DNA-binding domain superfamily / Winged helix-like DNA-binding domain superfamily / Orthogonal Bundle / Mainly Alpha Similarity search - Domain/homology | ||||||
Biological species | Pseudomonas aeruginosa (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 1.85 Å | ||||||
Authors | Sieminska, E.A. / Xu, X. / Zheng, H. / Lunin, V. / Cuff, M. / Joachimiak, A. / Edwards, A. / Savchenko, A. / Sanders, D.A. / Midwest Center for Structural Genomics (MCSG) | ||||||
Citation | Journal: Protein Sci. / Year: 2007 Title: The X-ray crystal structure of PA1607 from Pseudomonas aureginosa at 1.9 A resolution--a putative transcription factor. Authors: Sieminska, E.A. / Xu, X. / Savchenko, A. / Sanders, D.A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2f2e.cif.gz | 72.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2f2e.ent.gz | 58.3 KB | Display | PDB format |
PDBx/mmJSON format | 2f2e.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/f2/2f2e ftp://data.pdbj.org/pub/pdb/validation_reports/f2/2f2e | HTTPS FTP |
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-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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2 |
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3 |
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Unit cell |
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Components on special symmetry positions |
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Details | This protein is a dimer in solution |
-Components
#1: Protein | Mass: 16373.173 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Pseudomonas aeruginosa (bacteria) / Gene: PA1607 / Plasmid: pET15-modified / Production host: Escherichia coli (E. coli) / References: UniProt: Q9I3B4 #2: Chemical | ChemComp-SO4 / #3: Sugar | ChemComp-GLC / | #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.23 Å3/Da / Density % sol: 44.75 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 8.6 Details: 10mg/ml protein, 0.1 M Tris, 0.2 M LiSO4, 28 % PEG 3350, pH 8.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K |
-Data collection
Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 19-ID / Wavelength: 0.97932, 0.97948 | |||||||||
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Detector | Date: Apr 1, 2005 | |||||||||
Radiation | Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||
Radiation wavelength |
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Reflection | Resolution: 1.85→78 Å / Num. obs: 24599 |
-Processing
Software |
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Refinement | Method to determine structure: MAD / Resolution: 1.85→35.27 Å / Cor.coef. Fo:Fc: 0.96 / Cor.coef. Fo:Fc free: 0.919 / SU B: 6.596 / SU ML: 0.109 / Cross valid method: THROUGHOUT / ESU R: 0.167 / ESU R Free: 0.17 / Stereochemistry target values: MAXIMUM LIKELIHOOD
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 36.558 Å2
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Refinement step | Cycle: LAST / Resolution: 1.85→35.27 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.85→1.897 Å / Total num. of bins used: 20
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