☰ Navigation Tabs
L16A mutant of cytochrome c prime from Alcaligenes xylosoxidans: Ferrous state
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2YLI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 294 2.2M Ammonium sulfate
0.1 M HEPES pH 7.5
Crystal Properties Matthews coefficient Solvent content 2 56.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.532 α = 90 b = 53.532 β = 90 c = 180.938 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-F 2015-10-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.9 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.25 44.88 98.9 0.037 1 22.8 6.3 42926
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 1.25 1.27 95.9 0.884 2.3 6.2
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-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2yli 1.25 10 38384 98.9 0.1491 0.1556 0.1912 0.1557 RANDOM 20.9705
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]
RMS Deviations Key Refinement Restraint Deviation s_angle_d 299 s_similar_dist 117 s_zero_chiral_vol 39 s_non_zero_chiral_vol 4 s_approx_iso_adps 0.121 s_similar_adp_cmpnt 0.043 s_anti_bump_dis_restr 0.022 s_bond_d 0.013 s_from_restr_planes 0.004 s_rigid_bond_adp_cmpnt
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 937 Nucleic Acid Atoms Solvent Atoms 213 Heterogen Atoms 60
Software Software Software Name Purpose Aimless data scaling SHELXL refinement PDB_EXTRACT data extraction XDS data reduction PHASER phasing