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High resolution structure of putative organic hydroperoxide resistance protein from Vibrio cholerae O1 biovar eltor str. N16961
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8 291 0.2 M ZnAcetate, 0.1 M Imidazole, 20% Peg 3000, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.46 50.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.649 α = 90 b = 71.127 β = 90 c = 71.629 γ = 90
Symmetry Space Group I 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 CCD SBC-3 MIRRORS 2008-08-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM APS 19-BM
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 1.45 40 99.1 0.106 19.7 6.4 27234
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 1.45 1.48 90.9 0.464 2.34 2.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) 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 SAD THROUGHOUT 1.45 40 2 27216 25858 1358 99 0.141 0.139 0.1611 0.164 0.1791 RANDOM 5.82
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] 0.47 -0.08 -0.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.118 r_dihedral_angle_4_deg 21.242 r_dihedral_angle_3_deg 10.36 r_dihedral_angle_1_deg 5.635 r_scangle_it 3.316 r_scbond_it 2.156 r_angle_refined_deg 1.508 r_mcangle_it 1.377 r_angle_other_deg 0.986 r_mcbond_it 0.843
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.118 r_dihedral_angle_4_deg 21.242 r_dihedral_angle_3_deg 10.36 r_dihedral_angle_1_deg 5.635 r_scangle_it 3.316 r_scbond_it 2.156 r_angle_refined_deg 1.508 r_mcangle_it 1.377 r_angle_other_deg 0.986 r_mcbond_it 0.843 r_mcbond_other 0.255 r_chiral_restr 0.097 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_bond_other_d 0.003 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1009 Nucleic Acid Atoms Solvent Atoms 182 Heterogen Atoms 39
Software Software Software Name Purpose SBC-Collect data collection MOLREP phasing CCP4 model building REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling HKL-3000 phasing DM phasing ARP/wARP model building CCP4 phasing Coot model building