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Cytochrome c in complex with Sulfonato-calix[8]arene, P43212 form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1YCC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 1.85 M ammonium sulfate
0.1 M HEPES pH 7.0
0.2 M NaCl
(2x protein solution : 1x crystallisation condition)
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.59 α = 90 b = 101.59 β = 90 c = 86.52 γ = 90
Symmetry Space Group P 43 21 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 EIGER X 9M 2017-02-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON 0.98 SOLEIL PROXIMA 2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.65 71.83 99.9 0.166 0.175 0.054 0.988 9.8 10 13680
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.65 2.78 100 0.507 0.535 0.166 0.507 10.1
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 1YCC 2.65 71.83 12959 688 99.78 0.2447 0.2426 0.2428 0.2864 0.2847 RANDOM 47.769
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] -1.47 -1.47 2.94
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.487 r_dihedral_angle_4_deg 14.984 r_dihedral_angle_3_deg 13.002 r_dihedral_angle_1_deg 5.324 r_angle_refined_deg 1.182 r_angle_other_deg 0.708 r_chiral_restr 0.069 r_bond_refined_d 0.005 r_gen_planes_refined 0.005 r_gen_planes_other 0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.487 r_dihedral_angle_4_deg 14.984 r_dihedral_angle_3_deg 13.002 r_dihedral_angle_1_deg 5.324 r_angle_refined_deg 1.182 r_angle_other_deg 0.708 r_chiral_restr 0.069 r_bond_refined_d 0.005 r_gen_planes_refined 0.005 r_gen_planes_other 0.003 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 846 Nucleic Acid Atoms Solvent Atoms 35 Heterogen Atoms 436
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction Aimless data scaling PHASER phasing PDB_EXTRACT data extraction