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Crystal structure of NtrC family transcriptional regulator from Clostridium acetobutylicum
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 295 100mM Sodium Hepes pH 7.5, 2% PEG 400, 2M Ammonium sulfate, VAPOR DIFFUSION, SITTING DROP, temperature 295K, pH 7.50
Crystal Properties Matthews coefficient Solvent content 2.56 51.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.95 α = 72.94 b = 45.948 β = 72.98 c = 58.284 γ = 82.07
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 315 2007-05-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A NSLS X29A
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 1.49 50 95.9 0.098 18.4 4.2 68459
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 1.49 1.54 87.7 0.263 3.5
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.49 43.85 68457 68457 3455 96.3 0.188 0.187 0.185 0.21 0.2103 RANDOM 26.47
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] -0.05 0.8 0.18 0.55 -0.29 -0.65
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.869 r_dihedral_angle_4_deg 13.643 r_dihedral_angle_3_deg 12.651 r_dihedral_angle_1_deg 5.153 r_scangle_it 4.432 r_scbond_it 2.863 r_mcangle_it 1.755 r_angle_refined_deg 1.43 r_mcbond_it 1.051 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.869 r_dihedral_angle_4_deg 13.643 r_dihedral_angle_3_deg 12.651 r_dihedral_angle_1_deg 5.153 r_scangle_it 4.432 r_scbond_it 2.863 r_mcangle_it 1.755 r_angle_refined_deg 1.43 r_mcbond_it 1.051 r_nbtor_refined 0.308 r_nbd_refined 0.209 r_symmetry_vdw_refined 0.201 r_symmetry_hbond_refined 0.189 r_xyhbond_nbd_refined 0.135 r_chiral_restr 0.099 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2920 Nucleic Acid Atoms Solvent Atoms 389 Heterogen Atoms 79
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction SHELX phasing