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Fic protein from Neisseria meningitidis (NmFic) mutant E156R in dimeric form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3S6A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 BATCH MODE 7.8 277.15 10 mM Tris pH 7.8, 100 mM NaCl
Crystal Properties Matthews coefficient Solvent content 2.73 54.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.333 α = 90 b = 50.538 β = 90 c = 130.136 γ = 90
Symmetry Space Group P 2 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 100 PIXEL DECTRIS PILATUS 2M 2013-02-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 0.8000 SLS X06DA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) 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 0.99 65.07 99.6 0.032 0.013 1 28.3 6.5 129938
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 0.99 1.01 97.4 0.611 0.258 0.83 3.3 6.3 6218
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 3s6a 0.99 65.07 123331 6534 99.46 0.1127 0.1121 0.1117 0.1246 0.1238 RANDOM 12.635
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] -0.09 -0.19 0.28
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 36.905 r_dihedral_angle_2_deg 34.806 r_dihedral_angle_4_deg 15.745 r_sphericity_bonded 13.638 r_dihedral_angle_3_deg 11.918 r_rigid_bond_restr 7.738 r_dihedral_angle_1_deg 5.225 r_angle_refined_deg 2.2 r_mcangle_it 2.099 r_mcbond_it 1.899
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 36.905 r_dihedral_angle_2_deg 34.806 r_dihedral_angle_4_deg 15.745 r_sphericity_bonded 13.638 r_dihedral_angle_3_deg 11.918 r_rigid_bond_restr 7.738 r_dihedral_angle_1_deg 5.225 r_angle_refined_deg 2.2 r_mcangle_it 2.099 r_mcbond_it 1.899 r_mcbond_other 1.558 r_angle_other_deg 1.111 r_chiral_restr 0.156 r_bond_refined_d 0.029 r_gen_planes_refined 0.013 r_bond_other_d 0.003 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1498 Nucleic Acid Atoms Solvent Atoms 362 Heterogen Atoms 9
Software Software Software Name Purpose Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction