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The mutant A68C-D72C-NLQ of Deinococcus Radiodurans Nacylamino acid racemase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1R0M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 298 lithium sulfate, Tris-HCl, PEG4000, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.48 50.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 116.188 α = 90 b = 116.188 β = 90 c = 120.815 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 113 IMAGE PLATE RIGAKU RAXIS IV 2004-12-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.2 30 99.2 81312
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.2 2.28 98.4
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 (All) 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 1R0M 2.2 30 76131 4070 98.67 0.19 0.19049 0.18847 0.1895 0.22797 0.2048 RANDOM 24.98
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] 0.51 0.51 -1.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.608 r_dihedral_angle_4_deg 20.689 r_dihedral_angle_3_deg 15.969 r_dihedral_angle_1_deg 6.131 r_angle_refined_deg 1.199 r_nbtor_refined 0.315 r_symmetry_hbond_refined 0.232 r_nbd_refined 0.225 r_xyhbond_nbd_refined 0.187 r_symmetry_vdw_refined 0.151
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.608 r_dihedral_angle_4_deg 20.689 r_dihedral_angle_3_deg 15.969 r_dihedral_angle_1_deg 6.131 r_angle_refined_deg 1.199 r_nbtor_refined 0.315 r_symmetry_hbond_refined 0.232 r_nbd_refined 0.225 r_xyhbond_nbd_refined 0.187 r_symmetry_vdw_refined 0.151 r_chiral_restr 0.08 r_bond_refined_d 0.01 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11232 Nucleic Acid Atoms Solvent Atoms 702 Heterogen Atoms 30
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling AMoRE phasing