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Crystal structure of the D38A mutant of isochorismatase PhzD from Pseudomonas fluorescens 2-79 in complex with 2-amino-2-desoxyisochorismate ADIC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 0.1 M Na-cacodylate, 0.2 M Na-acetate, 25% (w/v) PEG 4000, soaking with 1 mM ADIC for 60 minutes, pH 6.5, vapor diffusion, hanging drop, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.14 42.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.48 α = 90 b = 72.1 β = 90 c = 78.94 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 IMAGE PLATE MAR scanner 345 mm plate 2010-08-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR 1.542
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 1.9 49.653 97.7 0.04 18.7 31346 -3 20.851
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 1.9 2 98.2 0.219 4.92
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 MOLECULAR REPLACEMENT THROUGHOUT 1.9 20 31334 1586 99.69 0.1451 0.1426 0.1573 0.1918 0.2011 RANDOM 27.3776
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] 0.21 -0.4 0.19
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.516 r_dihedral_angle_4_deg 19.657 r_dihedral_angle_3_deg 12.371 r_dihedral_angle_1_deg 6.258 r_scangle_it 4.203 r_scbond_it 2.833 r_angle_refined_deg 1.904 r_mcangle_it 1.666 r_mcbond_it 1.051 r_angle_other_deg 0.973
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.516 r_dihedral_angle_4_deg 19.657 r_dihedral_angle_3_deg 12.371 r_dihedral_angle_1_deg 6.258 r_scangle_it 4.203 r_scbond_it 2.833 r_angle_refined_deg 1.904 r_mcangle_it 1.666 r_mcbond_it 1.051 r_angle_other_deg 0.973 r_mcbond_other 0.393 r_chiral_restr 0.12 r_bond_refined_d 0.025 r_gen_planes_refined 0.016 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3197 Nucleic Acid Atoms Solvent Atoms 454 Heterogen Atoms 36
Software Software Software Name Purpose XSCALE data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction