☰ Navigation Tabs
Crystal structure of the Zn-directed tetramer of the engineered cyt cb 562 variant, C96I AB5
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3IQ6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 298 25% PEG 3350, 100 mM HEPES pH 7.5, 200 mM sodium chloride
Crystal Properties Matthews coefficient Solvent content 2.21 44.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.723 α = 90 b = 53.723 β = 90 c = 250.757 γ = 120
Symmetry Space Group P 61 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 CCD ADSC QUANTUM 270 2019-03-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 7A (6B, 6C1) 0.987 PAL/PLS 7A (6B, 6C1)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.98 28.38 99.8 0.129 105.8 40 15931
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.98 2.01 100 0.323 40.2
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-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 3IQ6 1.98 28.38 14722 769 99.79 0.1706 0.1679 0.1824 0.2213 0.2287 RANDOM 22.766
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] 0.15 0.08 0.15 -0.5
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 47.476 r_dihedral_angle_3_deg 15.292 r_dihedral_angle_4_deg 5.691 r_dihedral_angle_1_deg 5.32 r_angle_refined_deg 1.709 r_angle_other_deg 1.465 r_chiral_restr 0.081 r_bond_refined_d 0.015 r_gen_planes_refined 0.01 r_gen_planes_other 0.007
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 47.476 r_dihedral_angle_3_deg 15.292 r_dihedral_angle_4_deg 5.691 r_dihedral_angle_1_deg 5.32 r_angle_refined_deg 1.709 r_angle_other_deg 1.465 r_chiral_restr 0.081 r_bond_refined_d 0.015 r_gen_planes_refined 0.01 r_gen_planes_other 0.007 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1658 Nucleic Acid Atoms Solvent Atoms 194 Heterogen Atoms 97
Software Software Software Name Purpose HKL-2000 data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction