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Crystal structure of FabOX117
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3DGG PDB entry 3DGG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 85% of 0.2M Ammonium sulfate, 30% w/v PEG 4000 in 15% water - with 10 microliters of 1M NaOH per 1ml crystallization solution, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.47 50.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.206 α = 101.5 b = 70.602 β = 102.94 c = 87.849 γ = 98.32
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 225 mm CCD 2007-11-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 0.9537 ESRF BM14
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 2.4 30 97.7 0.103 10.8 3.4 35860 -1.5
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) 2.4 2.49 96.7 0.649 1.4 3.1 3531
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 entry 3DGG 2.4 30 33630 1774 97.72 0.22204 0.21856 0.285 0.28632 0.3297 RANDOM 44.74
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] -4.98 0.96 -0.87 3.55 2.08 2.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.836 r_dihedral_angle_3_deg 15.749 r_dihedral_angle_4_deg 12.843 r_scangle_it 6.367 r_dihedral_angle_1_deg 5.318 r_scbond_it 4.805 r_mcangle_it 4.053 r_mcbond_it 3.142 r_angle_refined_deg 1.026 r_mcbond_other 0.895
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.836 r_dihedral_angle_3_deg 15.749 r_dihedral_angle_4_deg 12.843 r_scangle_it 6.367 r_dihedral_angle_1_deg 5.318 r_scbond_it 4.805 r_mcangle_it 4.053 r_mcbond_it 3.142 r_angle_refined_deg 1.026 r_mcbond_other 0.895 r_angle_other_deg 0.826 r_symmetry_vdw_other 0.25 r_symmetry_hbond_refined 0.202 r_nbd_other 0.198 r_symmetry_vdw_refined 0.177 r_nbtor_refined 0.176 r_nbd_refined 0.163 r_xyhbond_nbd_refined 0.127 r_nbtor_other 0.081 r_chiral_restr 0.061 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6543 Nucleic Acid Atoms Solvent Atoms 311 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MAR345 data collection HKL-2000 data reduction SCALEPACK data scaling MOLREP phasing