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Crystal structure of a probable fosfomycin resistance protein (PA1129) from Pseudomonas aeruginosa with sulfate present in the active site
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1LQP PDB ENTRY 1LQP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 ammonium sulfate, MES, cobaltous (II) chloride, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 1.83 32.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.93 α = 90 b = 64.524 β = 90 c = 78.825 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 113 IMAGE PLATE RIGAKU RAXIS IV mirrors 2002-09-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 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 2.25 20 89.7 0.089 12.5 8 11408 10221 -3
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 2.25 2.33 60.3 0.316 3.1 663
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1LQP 2.25 20 10221 9642 540 89.77 0.19688 0.19688 0.1927 0.1995 0.2675 0.28 RANDOM 30.781
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] -2.63 2.89 -0.26
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.745 r_scangle_it 4.325 r_scbond_it 2.707 r_angle_refined_deg 1.805 r_mcangle_it 1.649 r_angle_other_deg 1.567 r_mcbond_it 0.932 r_symmetry_vdw_refined 0.311 r_symmetry_vdw_other 0.287 r_symmetry_hbond_refined 0.263
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.745 r_scangle_it 4.325 r_scbond_it 2.707 r_angle_refined_deg 1.805 r_mcangle_it 1.649 r_angle_other_deg 1.567 r_mcbond_it 0.932 r_symmetry_vdw_refined 0.311 r_symmetry_vdw_other 0.287 r_symmetry_hbond_refined 0.263 r_nbd_other 0.255 r_nbd_refined 0.209 r_xyhbond_nbd_refined 0.201 r_chiral_restr 0.104 r_nbtor_other 0.088 r_bond_refined_d 0.022 r_gen_planes_refined 0.008 r_gen_planes_other 0.006 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2124 Nucleic Acid Atoms Solvent Atoms 90 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing