☰ Navigation Tabs
Crystal structure of nvPizza2-S16H58 coordinating a CdCl2 nanocrystal
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4ZCN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 293 ammonium sulphate, cadmium chloride
Crystal Properties Matthews coefficient Solvent content 2.25 45.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.2 α = 90 b = 61.2 β = 90 c = 109.558 γ = 120
Symmetry Space Group P 31 2 1
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 2015-02-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.0 SPring-8 BL41XU
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 1.55 50 99.8 0.089 25.3 13.6 35015
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 1.55 1.58 98.6 0.481 2.4 8.1
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 4ZCN 1.55 50 33236 1737 99.69 0.1537 0.1519 0.1623 0.1875 0.1933 RANDOM 21.649
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] 0.38 0.19 0.38 -1.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.89 r_dihedral_angle_4_deg 14.843 r_dihedral_angle_3_deg 12.744 r_dihedral_angle_1_deg 6.757 r_mcangle_it 3.455 r_mcbond_it 2.382 r_mcbond_other 2.328 r_angle_refined_deg 2.129 r_angle_other_deg 1.153 r_chiral_restr 0.142
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.89 r_dihedral_angle_4_deg 14.843 r_dihedral_angle_3_deg 12.744 r_dihedral_angle_1_deg 6.757 r_mcangle_it 3.455 r_mcbond_it 2.382 r_mcbond_other 2.328 r_angle_refined_deg 2.129 r_angle_other_deg 1.153 r_chiral_restr 0.142 r_bond_refined_d 0.022 r_gen_planes_refined 0.012 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1816 Nucleic Acid Atoms Solvent Atoms 164 Heterogen Atoms 17
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction SCALEPACK data scaling MOLREP phasing