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Spectroscopically-validated structure of ferrous cytochrome c prime from Alcaligenes xylosoxidans, reduced using ascorbate
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 AMMONIUM SULFATE, HEPES PH 7.5
Crystal Properties Matthews coefficient Solvent content 2.62 53.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.716 α = 90 b = 53.716 β = 90 c = 180.624 γ = 120
Symmetry Space Group P 65 2 2
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 DECTRIS PILATUS 6M MIRRORS 2013-03-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA SLS X10SA
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 1.22 45.1 97.8 0.03 20 4.5 47035
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 1.22 1.29 88.4 0.51 2.6 3.3
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 OTHER THROUGHOUT NONE 1.22 45.09 43544 2309 97.49 0.14541 0.1441 0.1583 0.17095 0.1786 RANDOM 14.86
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] -0.16 -0.16 -0.16 0.53
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 35.613 r_dihedral_angle_2_deg 33.788 r_dihedral_angle_4_deg 22.003 r_dihedral_angle_3_deg 14.623 r_sphericity_bonded 11.651 r_rigid_bond_restr 6.165 r_dihedral_angle_1_deg 4.894 r_scbond_it 2.741 r_angle_refined_deg 2.16 r_mcangle_it 1.812
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 35.613 r_dihedral_angle_2_deg 33.788 r_dihedral_angle_4_deg 22.003 r_dihedral_angle_3_deg 14.623 r_sphericity_bonded 11.651 r_rigid_bond_restr 6.165 r_dihedral_angle_1_deg 4.894 r_scbond_it 2.741 r_angle_refined_deg 2.16 r_mcangle_it 1.812 r_mcbond_it 1.492 r_mcbond_other 1.395 r_angle_other_deg 1.082 r_chiral_restr 0.092 r_bond_refined_d 0.014 r_gen_planes_refined 0.01 r_gen_planes_other 0.01 r_bond_other_d 0.001 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 949 Nucleic Acid Atoms Solvent Atoms 166 Heterogen Atoms 60
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling