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Crystal structure of predicted DNA-binding transcriptional regulator of TetR/AcrR family (NP_350189.1) from Clostridium acetobutylicum at 2.10 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 NANODROP, 25.0% Ethylene glycol, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.03 59.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.967 α = 90 b = 89.967 β = 90 c = 70.274 γ = 90
Symmetry Space Group P 42 21 2
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 2007-10-05 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 0.9798, 0.9537, 0.9796 ALS 8.2.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.1 29.988 100 0.089 0.089 6 6.5 17429
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 2.1 2.15 100 0.983 0.983 0.7 6.8 1282
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 (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 29.988 17389 882 99.9 0.204 0.203 0.2082 0.234 0.235 RANDOM 41.914
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] -1.65 -1.65 3.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.353 r_dihedral_angle_4_deg 20.909 r_dihedral_angle_3_deg 11.533 r_scangle_it 7.034 r_scbond_it 4.707 r_dihedral_angle_1_deg 3.409 r_mcangle_it 3.054 r_mcbond_it 1.621 r_angle_refined_deg 1.514 r_angle_other_deg 1.298
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.353 r_dihedral_angle_4_deg 20.909 r_dihedral_angle_3_deg 11.533 r_scangle_it 7.034 r_scbond_it 4.707 r_dihedral_angle_1_deg 3.409 r_mcangle_it 3.054 r_mcbond_it 1.621 r_angle_refined_deg 1.514 r_angle_other_deg 1.298 r_mcbond_other 0.329 r_nbd_refined 0.176 r_nbtor_refined 0.159 r_symmetry_vdw_other 0.135 r_symmetry_vdw_refined 0.128 r_nbd_other 0.124 r_chiral_restr 0.098 r_xyhbond_nbd_refined 0.096 r_symmetry_hbond_refined 0.089 r_nbtor_other 0.072 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1468 Nucleic Acid Atoms Solvent Atoms 82 Heterogen Atoms 13
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction ADSC data collection MOSFLM data reduction SHELXD phasing SHARP phasing