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Crystal Structure of the OXA-10 W154A mutant at pH 6.0
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2HP5 PDB ID 2HP5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 293 2M Ammonium sulfate, Bicine pH9; the crystal was soaked at pH6 (MES) for 6 days., pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.59 52.49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.33 α = 90 b = 94.43 β = 90 c = 125.29 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 2005-03-02 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 2.5 19.17 98.9 0.133 15 7.2 20280 20280 28.8
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 2.5 2.64 98.4 0.403 5.6 7.3 2886
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 2HP5 2.5 19.17 19186 1005 98.27 0.2062 0.20324 0.2077 0.26277 0.2678 RANDOM 20.096
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] -1.67 3.87 -2.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.059 r_dihedral_angle_3_deg 13.802 r_dihedral_angle_4_deg 10.444 r_dihedral_angle_1_deg 4.619 r_mcangle_it 1.511 r_scangle_it 1.187 r_angle_refined_deg 0.94 r_mcbond_it 0.926 r_scbond_it 0.788 r_nbtor_refined 0.295
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.059 r_dihedral_angle_3_deg 13.802 r_dihedral_angle_4_deg 10.444 r_dihedral_angle_1_deg 4.619 r_mcangle_it 1.511 r_scangle_it 1.187 r_angle_refined_deg 0.94 r_mcbond_it 0.926 r_scbond_it 0.788 r_nbtor_refined 0.295 r_nbd_refined 0.178 r_symmetry_vdw_refined 0.132 r_xyhbond_nbd_refined 0.12 r_symmetry_hbond_refined 0.116 r_chiral_restr 0.067 r_bond_refined_d 0.006 r_gen_planes_refined 0.002 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 240 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling AMoRE phasing