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Imine Reductase from Ajellomyces dermatitidis in space group C21
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5G6R
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 298 0.1 M MES pH 6.0; 0.2 M MgCl2; 20% PEG 6000
Crystal Properties Matthews coefficient Solvent content 2.56 51.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 204.62 α = 90 b = 87.97 β = 108.45 c = 162.58 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 120 PIXEL DECTRIS EIGER2 XE 16M 2016-04-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.97631 Diamond I03
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 1.73 97.16 98.8 0.09 0.06 1 11.2 6.9 278614 22
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 1.73 1.77 1.16 0.71 0.51 1.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.73 97.16 264735 13858 97.79 0.16767 0.16634 0.1776 0.19326 0.2028 RANDOM 26.594
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] -0.3 0.12 0.33 -0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.705 r_long_range_B_refined 7.045 r_long_range_B_other 6.998 r_dihedral_angle_2_deg 6.829 r_scangle_other 6.232 r_dihedral_angle_1_deg 5.417 r_scbond_it 4.175 r_scbond_other 4.175 r_mcangle_it 3.446 r_mcangle_other 3.446
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.705 r_long_range_B_refined 7.045 r_long_range_B_other 6.998 r_dihedral_angle_2_deg 6.829 r_scangle_other 6.232 r_dihedral_angle_1_deg 5.417 r_scbond_it 4.175 r_scbond_other 4.175 r_mcangle_it 3.446 r_mcangle_other 3.446 r_mcbond_it 2.539 r_mcbond_other 2.539 r_angle_refined_deg 1.5 r_angle_other_deg 0.506 r_chiral_restr 0.083 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 18882 Nucleic Acid Atoms Solvent Atoms 1961 Heterogen Atoms 432
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling MOLREP phasing