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Structure of the P368G mutant of PMM/PGM from P. aeruginosa
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1K35
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 297 Na, K tartrate, 0.1 M Hepes, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 297K
Crystal Properties Matthews coefficient Solvent content 2.35 47.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.597 α = 90 b = 72.251 β = 90 c = 92.784 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 RIGAKU RAXIS IV++ Osmic 2007-10-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R 1.54
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 2.2 40 96.5 0.095 13.9 3.6 23903
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 2.2 2.28 92.5 0.466 2 3.5 2230
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 refinement THROUGHOUT 1K35 2.2 40 22644 1222 96.06 0.17824 0.17597 0.1755 0.22134 0.22 RANDOM 32.144
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] -2.22 -1.41 3.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.849 r_dihedral_angle_4_deg 16.595 r_dihedral_angle_3_deg 14.88 r_dihedral_angle_1_deg 5.898 r_scangle_it 2.594 r_scbond_it 1.658 r_angle_refined_deg 1.362 r_mcangle_it 0.964 r_mcbond_it 0.592 r_nbtor_refined 0.305
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.849 r_dihedral_angle_4_deg 16.595 r_dihedral_angle_3_deg 14.88 r_dihedral_angle_1_deg 5.898 r_scangle_it 2.594 r_scbond_it 1.658 r_angle_refined_deg 1.362 r_mcangle_it 0.964 r_mcbond_it 0.592 r_nbtor_refined 0.305 r_nbd_refined 0.206 r_symmetry_vdw_refined 0.178 r_symmetry_hbond_refined 0.177 r_xyhbond_nbd_refined 0.154 r_chiral_restr 0.087 r_metal_ion_refined 0.021 r_bond_refined_d 0.012 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3439 Nucleic Acid Atoms Solvent Atoms 141 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling