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MexB in complex with LMNG
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3W9I
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 298 50mM Na Acetate-HCl pH5.0, 300mM NaCl, 25% PEG400
Crystal Properties Matthews coefficient Solvent content 3.48 64.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 122.949 α = 87.53 b = 134.343 β = 70.2 c = 149.692 γ = 89.02
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 MARMOSAIC 300 mm CCD 2014-05-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.9 SPring-8 BL44XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.9 140.73 98.9 0.057 0.066 0.033 12.6 3.9 199569
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.9 2.95 98.7 0.753 0.873 0.441 0.786 3.9
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 3W9I 2.91 140.73 174254 9196 92.71 0.2361 0.2339 0.2336 0.2777 0.2747 RANDOM 54.214
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] -0.45 1.18 -0.48 -0.22 0.44 0.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.629 r_dihedral_angle_4_deg 18.27 r_dihedral_angle_3_deg 17.743 r_dihedral_angle_1_deg 6.088 r_angle_refined_deg 1.662 r_angle_other_deg 1.098 r_chiral_restr 0.089 r_bond_refined_d 0.013 r_bond_other_d 0.006 r_gen_planes_refined 0.006
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.629 r_dihedral_angle_4_deg 18.27 r_dihedral_angle_3_deg 17.743 r_dihedral_angle_1_deg 6.088 r_angle_refined_deg 1.662 r_angle_other_deg 1.098 r_chiral_restr 0.089 r_bond_refined_d 0.013 r_bond_other_d 0.006 r_gen_planes_refined 0.006 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 46738 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 138
Software Software Software Name Purpose HKL-2000 data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction MOLREP phasing