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Crystal structure of murine neuroglobin mutant V140W under 20 bar xenon pressure
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Q1F
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 1.6 M ammonium sulfate, 0.1 M MES, 10 % dioxane
Crystal Properties Matthews coefficient Solvent content 2.65 53.51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.257 α = 90 b = 89.257 β = 90 c = 115.416 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 293 CCD ADSC QUANTUM 210r mirrors 2011-02-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM16 0.980 ESRF BM16
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 2.048 23.121 99.6 0.077 0.092 0.034 14.6 7.4 11323 28.01
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.05 2.16 97.9 0.758 0.758 0.882 0.323 1 7.3
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 1q1f 2.05 20 10750 565 99.48 0.1549 0.1524 0.1635 0.2022 0.2014 RANDOM 43.341
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] 0.1 0.05 0.1 -0.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.08 r_dihedral_angle_4_deg 15.977 r_dihedral_angle_3_deg 15.714 r_dihedral_angle_1_deg 6.107 r_angle_refined_deg 2.035 r_angle_other_deg 1.554 r_chiral_restr 0.125 r_bond_refined_d 0.021 r_gen_planes_refined 0.011 r_gen_planes_other 0.004
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.08 r_dihedral_angle_4_deg 15.977 r_dihedral_angle_3_deg 15.714 r_dihedral_angle_1_deg 6.107 r_angle_refined_deg 2.035 r_angle_other_deg 1.554 r_chiral_restr 0.125 r_bond_refined_d 0.021 r_gen_planes_refined 0.011 r_gen_planes_other 0.004 r_bond_other_d 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1179 Nucleic Acid Atoms Solvent Atoms 52 Heterogen Atoms 60
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction REFMAC phasing