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The Structure of a Putative Transcriptional Regulator TetR Family Protein from Vibrio parahaemolyticus.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 289 0.8M ammonium sulfate,0.1M tri-sodium citrate, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.4 48.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.272 α = 90 b = 95.548 β = 90 c = 190.541 γ = 90
Symmetry Space Group C 2 2 21
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 ADSC QUANTUM 315r 2008-03-23 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97942, 0.97931 APS 19-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.15 50 99.7 0.089 33.882 9.5 34848 34848 -3 41.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.15 2.19 99.9 0.58 7.8 1762
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2.2 48.67 32866 1649 99.68 0.189 0.189 0.187 0.2055 0.227 0.2455 RANDOM 29.556
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] 2.31 -1.47 -0.84
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.517 r_dihedral_angle_4_deg 17.134 r_dihedral_angle_3_deg 16.148 r_dihedral_angle_1_deg 5.272 r_scangle_it 4.095 r_scbond_it 2.584 r_mcangle_it 1.511 r_angle_refined_deg 1.436 r_angle_other_deg 0.914 r_mcbond_it 0.788
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.517 r_dihedral_angle_4_deg 17.134 r_dihedral_angle_3_deg 16.148 r_dihedral_angle_1_deg 5.272 r_scangle_it 4.095 r_scbond_it 2.584 r_mcangle_it 1.511 r_angle_refined_deg 1.436 r_angle_other_deg 0.914 r_mcbond_it 0.788 r_mcbond_other 0.18 r_chiral_restr 0.083 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4295 Nucleic Acid Atoms Solvent Atoms 242 Heterogen Atoms 73
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MLPHARE phasing DM phasing REFMAC refinement PDB_EXTRACT data extraction SBC-Collect data collection HKL-3000 data reduction HKL-3000 data scaling HKL-3000 phasing SHELXD phasing SHELXE model building SOLVE phasing RESOLVE phasing ARP/wARP model building CCP4 phasing O model building Coot model building