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Crystal structure of the potential transfer protein TraK from Gram-positive conjugative plasmid pIP501
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 vapor diffusion: microbatch under oil 6.5 298 1:1 setup of purification buffer with Morpheus screen condition 52 (12.5 % PEG 1000, 12.5 % PEG 3350, 12.5 % MPD, ethylene glycols mix, 0.1 M MES/Imidazol); final protein concentration: 6.45 mg/ml, pH 6.5, vapor diffusion: microbatch under oil, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.2 61.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 114.04 α = 90 b = 114.04 β = 90 c = 120.52 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARMOSAIC 225 mm CCD toroidal mirror (M2) to vertically and horizontally focus the beam at the sample position (with 2:1 horizontal demagnification) 2010-05-30 Native
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 1.0 SLS X06DA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 3.001 82.835 99.9 0.094 12.3 7.6 15465 15465
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3 3.16 100 0.832 0.832 0.9 7.6 2231
Refinement Statistics Diffraction ID Structure Solution Method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT 3.001 40.319 15465 15465 770 99.99 0.2128 0.2128 0.205 0.2337 0.2055 Random 59.7934
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 16.902 f_angle_d 1.577 f_chiral_restr 0.093 f_bond_d 0.011 f_plane_restr 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3310 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling PHASER phasing PHENIX refinement PDB_EXTRACT data extraction MAR345dtb data collection