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The SoxYZ complex of Paracoccus pantotrophus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 2 microl of protein at 10 mg/ml in 10 mM Tris-HCl pH 8.0, 5 mM beta-mercaptoethanol and 200 mM NaCl mixed with 2 microl of 28-30 % (w/v) PEG 3350, 100 mM sodium acetate pH 4.75, 200 mM NH4SO4, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.34 47.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 206.605 α = 90 b = 54.708 β = 98.58 c = 77.884 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MAR CCD 165 mm 2003-04-03 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 0.9793, 0.8731 ESRF BM14
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.981 102.147 98.7 0.07 0.07 8.6 4 59443 59443 19.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.98 2.09 91.3 0.27 0.27 2.7 3 7876
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 1.98 50 59443 59443 3006 98.72 0.175 0.175 0.173 0.1727 0.211 0.2115 RANDOM 22.604
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] -0.59 0.31 0.74 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.31 r_dihedral_angle_4_deg 19.823 r_dihedral_angle_3_deg 15.182 r_dihedral_angle_1_deg 6.353 r_scangle_it 3.538 r_scbond_it 2.229 r_angle_refined_deg 1.354 r_mcangle_it 1.34 r_mcbond_it 0.838 r_nbtor_refined 0.299
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.31 r_dihedral_angle_4_deg 19.823 r_dihedral_angle_3_deg 15.182 r_dihedral_angle_1_deg 6.353 r_scangle_it 3.538 r_scbond_it 2.229 r_angle_refined_deg 1.354 r_mcangle_it 1.34 r_mcbond_it 0.838 r_nbtor_refined 0.299 r_nbd_refined 0.204 r_symmetry_vdw_refined 0.191 r_xyhbond_nbd_refined 0.162 r_symmetry_hbond_refined 0.145 r_chiral_restr 0.096 r_bond_refined_d 0.013 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6335 Nucleic Acid Atoms Solvent Atoms 895 Heterogen Atoms 51
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection MOSFLM data reduction SOLVE phasing