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Crystal structure of HemD (PA5259) from Pseudomonas aeruginosa (PAO1) at 2.22 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.7 293 0.1M Na-Cacodylate pH 6.7, 0.87M Na-Citrate , VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.35 63.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 132.07 α = 90 b = 132.07 β = 90 c = 42.44 γ = 90
Symmetry Space Group P 43 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 110 CCD ADSC QUANTUM 315r mirrors 2009-10-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.979400 ESRF ID23-1
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 2.22 66.04 99 0.084 0.084 12 6.3 18993 18993 3.1 3.1 42.1
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 2.22 2.34 95.5 0.539 0.539 3.1 4.3 2611
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) 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 2.22 41.76 3.1 3.1 17976 17976 940 98.75 0.21428 0.21234 0.2089 0.25183 0.2503 RANDOM 39.413
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] 0.37 0.37 -0.73
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.867 r_dihedral_angle_4_deg 16.468 r_dihedral_angle_3_deg 16.398 r_dihedral_angle_1_deg 5.562 r_scangle_it 3.068 r_scbond_it 1.752 r_mcangle_it 1.201 r_angle_refined_deg 1.174 r_mcbond_it 0.625 r_chiral_restr 0.071
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.867 r_dihedral_angle_4_deg 16.468 r_dihedral_angle_3_deg 16.398 r_dihedral_angle_1_deg 5.562 r_scangle_it 3.068 r_scbond_it 1.752 r_mcangle_it 1.201 r_angle_refined_deg 1.174 r_mcbond_it 0.625 r_chiral_restr 0.071 r_bond_refined_d 0.01 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1905 Nucleic Acid Atoms Solvent Atoms 98 Heterogen Atoms 2
Software Software Software Name Purpose ADSC data collection SHELXS phasing REFMAC refinement MOSFLM data reduction SCALA data scaling