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Crystal structure of the fosfomycin resistance protein from transposon Tn2921
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1LQO PDB ENTRY 1LQO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 1.6M ammonium sulfate, 100 mM sodium citrate,
5% glycerol, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.87 68.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 208.597 α = 90 b = 208.597 β = 90 c = 136.358 γ = 90
Symmetry Space Group I 4 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 113 CCD ADSC QUANTUM 4 2002-08-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-D 0.9797 APS 14-BM-D
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 2.5 30 98.9 0.082 20.5 7.3 51262 50.36
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 2.5 2.59 90.3 0.442 2.7 4613
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1LQO 2.5 12 46761 46761 1433 93.79 0.18457 0.18318 0.23044 RANDOM 31.381
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] 0.46 0.46 -0.93
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.606 r_scangle_it 3.568 r_scbond_it 2.331 r_angle_refined_deg 1.672 r_mcangle_it 1.403 r_mcbond_it 0.717 r_nbd_refined 0.213 r_symmetry_vdw_refined 0.211 r_symmetry_hbond_refined 0.192 r_xyhbond_nbd_refined 0.141
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.606 r_scangle_it 3.568 r_scbond_it 2.331 r_angle_refined_deg 1.672 r_mcangle_it 1.403 r_mcbond_it 0.717 r_nbd_refined 0.213 r_symmetry_vdw_refined 0.211 r_symmetry_hbond_refined 0.192 r_xyhbond_nbd_refined 0.141 r_chiral_restr 0.12 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_symmetry_vdw_other r_symmetry_hbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6602 Nucleic Acid Atoms Solvent Atoms 348 Heterogen Atoms 92
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing