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Complexes of Dodecin with Flavin and Flavin-like Ligands
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MOG PDB ENTRY 1MOG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 2.0 M NACL,0.2 M MGCL2,0.1 M NA, HEPES 30% (W/V) PEG400, pH 7.50
Crystal Properties Matthews coefficient Solvent content 3.98 69.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 141.72 α = 90 b = 141.72 β = 90 c = 141.72 γ = 90
Symmetry Space Group F 41 3 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 287 CCD ADSC CCD MIRRORS 2002-11-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 ESRF ID29
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 1.32 20 99.2 0.09 11.5 6.8 28949 3.2
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 1.3 1.32 99.4 0.65 3.2 6.8
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1MOG 1.27 20 30709 1643 99 0.208 0.207 0.232 0.2274 RANDOM 18.79
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.077 r_scangle_it 3.841 r_scbond_it 2.326 r_mcangle_it 1.779 r_angle_refined_deg 1.188 r_mcbond_it 0.945 r_nbd_refined 0.193 r_symmetry_vdw_refined 0.154 r_xyhbond_nbd_refined 0.129 r_symmetry_hbond_refined 0.121
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.077 r_scangle_it 3.841 r_scbond_it 2.326 r_mcangle_it 1.779 r_angle_refined_deg 1.188 r_mcbond_it 0.945 r_nbd_refined 0.193 r_symmetry_vdw_refined 0.154 r_xyhbond_nbd_refined 0.129 r_symmetry_hbond_refined 0.121 r_chiral_restr 0.085 r_bond_refined_d 0.009 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 495 Nucleic Acid Atoms Solvent Atoms 86 Heterogen Atoms 27
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling CCP4 phasing