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Structural and Kinetic Properties of a beta-hydroxyacid dehydrogenase involved in nicotinate fermentation
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 5.5 291 19% PEG 8000, 0.1 M Sodium cacodylate, 0.1 M Ammonium sulfate, pH 5.5, VAPOR DIFFUSION, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.47 50.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.978 α = 90 b = 175.779 β = 90 c = 83.709 γ = 90
Symmetry Space Group P 21 21 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 MARRESEARCH 2005-09-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7A 0.9795 EMBL/DESY, HAMBURG BW7A
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 2.3 41.849 94.1 0.109 0.109 5.2 4.6 55151
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 2.3 2.42 77.2 0.384 0.384 2 3.7 6091
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.3 24.47 55151 52485 2674 95.06 0.195 0.194 0.222 0.2721 RANDOM 43.011
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] -3.08 1.55 1.52
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.361 r_dihedral_angle_4_deg 15.398 r_dihedral_angle_3_deg 15.286 r_dihedral_angle_1_deg 5.376 r_scangle_it 1.878 r_scbond_it 1.279 r_angle_refined_deg 1.063 r_angle_other_deg 0.871 r_mcbond_it 0.548 r_mcangle_it 0.548
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.361 r_dihedral_angle_4_deg 15.398 r_dihedral_angle_3_deg 15.286 r_dihedral_angle_1_deg 5.376 r_scangle_it 1.878 r_scbond_it 1.279 r_angle_refined_deg 1.063 r_angle_other_deg 0.871 r_mcbond_it 0.548 r_mcangle_it 0.548 r_symmetry_vdw_other 0.227 r_nbd_refined 0.203 r_symmetry_hbond_refined 0.197 r_symmetry_vdw_refined 0.179 r_nbd_other 0.175 r_nbtor_refined 0.165 r_xyhbond_nbd_refined 0.159 r_nbtor_other 0.086 r_mcbond_other 0.085 r_chiral_restr 0.057 r_xyhbond_nbd_other 0.045 r_bond_refined_d 0.009 r_gen_planes_refined 0.003 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8045 Nucleic Acid Atoms Solvent Atoms 447 Heterogen Atoms
Software Software Software Name Purpose SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction MOSFLM data reduction