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Crystal structure of the OXA-10 W154A mutant at pH 9.0
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2HP6 PDB ID 2HP6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9 293 2M ammonium sulfate, Bicine, pH 9, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.63 53.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.45 α = 90 b = 95.46 β = 90 c = 125.67 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 IMAGE PLATE MAR scanner 345 mm plate 2005-02-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.54178
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 2.05 20 96.5 0.108 14.7 5.8 36106 36106 27.59
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 2.05 2.16 92.6 0.846 2.2 5.7 4956
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 MOLECULAR REPLACEMENT THROUGHOUT PDB ID 2HP6 2.05 14.88 35412 1865 99.94 0.21249 0.20943 0.2112 0.27001 0.2708 RANDOM 24.671
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] -0.76 1.57 -0.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.178 r_dihedral_angle_4_deg 17.653 r_dihedral_angle_3_deg 14.364 r_dihedral_angle_1_deg 5.23 r_mcangle_it 2.112 r_scangle_it 1.954 r_mcbond_it 1.402 r_scbond_it 1.392 r_angle_refined_deg 1.253 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.178 r_dihedral_angle_4_deg 17.653 r_dihedral_angle_3_deg 14.364 r_dihedral_angle_1_deg 5.23 r_mcangle_it 2.112 r_scangle_it 1.954 r_mcbond_it 1.402 r_scbond_it 1.392 r_angle_refined_deg 1.253 r_nbtor_refined 0.304 r_nbd_refined 0.209 r_symmetry_vdw_refined 0.171 r_xyhbond_nbd_refined 0.168 r_symmetry_hbond_refined 0.16 r_chiral_restr 0.083 r_bond_refined_d 0.01 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_refined 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 3860 Nucleic Acid Atoms Solvent Atoms 351 Heterogen Atoms 25
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling AMoRE phasing