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Crystal Structure of Human Methionine-R-Sulfoxide Reductase B1 (MsrB1)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3E0O pdb entry 3e0o
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293.15 2.6M Na Malonate, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 293.15K
Crystal Properties Matthews coefficient Solvent content 2.02 39.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.054 α = 90 b = 47.473 β = 90 c = 57.809 γ = 90
Symmetry Space Group P 21 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 PSI PILATUS 6M two K-B pairs of bimorph type mirrors 2010-02-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 0.9795 Diamond I24
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 1.42 36.69 99.7 0.069 15.4 6.1 18242 18197 11.7
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) 1.42 1.5 98.2 0.392 3.7 4.5 2552
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 pdb entry 3e0o 1.42 36.69 18197 17271 928 99.52 0.14188 0.14188 0.1404 0.1503 0.16964 0.1765 RANDOM 10.943
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] -0.11 -0.09 0.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.364 r_dihedral_angle_4_deg 14.991 r_dihedral_angle_3_deg 10.331 r_dihedral_angle_1_deg 6.443 r_scangle_it 6.284 r_scbond_it 4.323 r_mcangle_it 3.067 r_mcbond_it 1.926 r_angle_refined_deg 1.523 r_angle_other_deg 0.866
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.364 r_dihedral_angle_4_deg 14.991 r_dihedral_angle_3_deg 10.331 r_dihedral_angle_1_deg 6.443 r_scangle_it 6.284 r_scbond_it 4.323 r_mcangle_it 3.067 r_mcbond_it 1.926 r_angle_refined_deg 1.523 r_angle_other_deg 0.866 r_mcbond_other 0.543 r_chiral_restr 0.099 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 r_bond_other_d 0.003 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 844 Nucleic Acid Atoms Solvent Atoms 143 Heterogen Atoms 24
Software Software Software Name Purpose PHASER phasing REFMAC refinement XDS data reduction SCALA data scaling