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Crystal Structure of a Hyperactive Escherichia coli Glycerol Kinase Mutant Gly230 --> Asp Obtained Using Microfluidic Crystallization Devices
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GLF pdb entry 1GLF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 microfluidic free interface diffusion 8.5 298 20% PEG 1500, 0.3 M MAGNESIUM CHLORIDE, 0.1 M TRIS-HCL, pH 8.5, microfluidic free interface diffusion, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.34 47.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.116 α = 90 b = 114.26 β = 91.15 c = 212.624 γ = 90
Symmetry Space Group P 1 21 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 QUANTUM 4 2006-02-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-3 0.97 SSRL BL11-3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 50 84 0.059 36.8 5.9 250186
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.05 73.2 0.225 6.6 3.4
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 MOLECULAR REPLACEMENT THROUGHOUT pdb entry 1GLF 2 20 246407 5032 84.05 0.1679 0.16673 0.173 0.22478 0.2284 RANDOM 24.437
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] -2.23 0.59 0.97 1.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.247 r_dihedral_angle_4_deg 19.763 r_dihedral_angle_3_deg 15.477 r_dihedral_angle_1_deg 7.024 r_scangle_it 4.689 r_scbond_it 2.989 r_angle_refined_deg 1.893 r_mcangle_it 1.872 r_angle_other_deg 1.673 r_mcbond_it 1.107
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.247 r_dihedral_angle_4_deg 19.763 r_dihedral_angle_3_deg 15.477 r_dihedral_angle_1_deg 7.024 r_scangle_it 4.689 r_scbond_it 2.989 r_angle_refined_deg 1.893 r_mcangle_it 1.872 r_angle_other_deg 1.673 r_mcbond_it 1.107 r_mcbond_other 0.338 r_chiral_restr 0.116 r_bond_refined_d 0.024 r_gen_planes_refined 0.01 r_gen_planes_other 0.003 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 31113 Nucleic Acid Atoms Solvent Atoms 1526 Heterogen Atoms 133
Software Software Software Name Purpose REFMAC refinement CNS refinement DENZO data reduction SCALEPACK data scaling CNS phasing