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Putative sugar-binding domain of transcriptional regulator DeoR from Pseudomonas syringae pv. tomato
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 291 0.1M Bis-Tris pH 6.5, 2M Ammonium sulfate, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.22 44.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.112 α = 90 b = 42.112 β = 90 c = 144.782 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 CUSTOM-MADE 2006-06-14 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.97907, 0.97921 APS 19-BM
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 2.1 50 89.5 0.081 10.6 7.7 13180 13180 -3 36.2
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 2.1 2.18 72.7 0.434 2.65 4.4 1052
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation 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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2.1 36.4 13120 13120 658 89.48 0.197 0.197 0.195 0.2132 0.252 0.2698 RANDOM 42.944
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] 1.84 1.84 -3.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.925 r_dihedral_angle_4_deg 24.166 r_dihedral_angle_3_deg 16.229 r_dihedral_angle_1_deg 6.569 r_scangle_it 3.2 r_scbond_it 2.127 r_angle_refined_deg 1.477 r_mcangle_it 1.306 r_mcbond_it 0.916 r_nbtor_refined 0.298
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.925 r_dihedral_angle_4_deg 24.166 r_dihedral_angle_3_deg 16.229 r_dihedral_angle_1_deg 6.569 r_scangle_it 3.2 r_scbond_it 2.127 r_angle_refined_deg 1.477 r_mcangle_it 1.306 r_mcbond_it 0.916 r_nbtor_refined 0.298 r_nbd_refined 0.2 r_xyhbond_nbd_refined 0.165 r_symmetry_vdw_refined 0.155 r_symmetry_hbond_refined 0.121 r_chiral_restr 0.095 r_bond_refined_d 0.015 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1635 Nucleic Acid Atoms Solvent Atoms 108 Heterogen Atoms 10
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