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DntR Inducer Binding Domain in Complex with Salicylate. Trigonal crystal form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other INITIAL S-SAD MODEL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 0.2 M NA/K TARTRATE, 0.1 M TRIS PH 8.0-8.5; PEG 8000 28-30%
Crystal Properties Matthews coefficient Solvent content 3.63 66.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.698 α = 90 b = 95.698 β = 90 c = 67.404 γ = 120
Symmetry Space Group P 31 2 1
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 CCD MIRRORS M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 1.82, 0.976 ESRF ID23-1
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 1.85 52.3 98.9 0.09 11.2 4.8 29716 22.2
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 1.85 1.9 99.8 0.55 2.9 4.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) 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 S-SAD/MOLECULAR REPLACEMENT THROUGHOUT INITIAL S-SAD MODEL 1.85 82.76 28765 1526 98.5 0.18182 0.18001 0.1813 0.21599 0.2169 RANDOM 24.175
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] -0.72 -0.36 -0.72 1.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.042 r_dihedral_angle_4_deg 20.137 r_dihedral_angle_3_deg 15.337 r_dihedral_angle_1_deg 6.752 r_scangle_it 4.581 r_scbond_it 2.899 r_mcangle_it 2.023 r_angle_refined_deg 1.884 r_mcbond_it 1.187 r_chiral_restr 0.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.042 r_dihedral_angle_4_deg 20.137 r_dihedral_angle_3_deg 15.337 r_dihedral_angle_1_deg 6.752 r_scangle_it 4.581 r_scbond_it 2.899 r_mcangle_it 2.023 r_angle_refined_deg 1.884 r_mcbond_it 1.187 r_chiral_restr 0.14 r_bond_refined_d 0.022 r_gen_planes_refined 0.011 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1704 Nucleic Acid Atoms Solvent Atoms 181 Heterogen Atoms 43
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling SHELXD phasing SHELXE phasing PHASER phasing