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Crystal Structure of Pd(allyl)/apo-Fr
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DAT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 ammonium sulfate, cadmium slfate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.13 60.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 181.45 α = 90 b = 181.45 β = 90 c = 181.45 γ = 90
Symmetry Space Group F 4 3 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 IMAGE PLATE RIGAKU RAXIS VII 2007-08-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.5418
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 1.7 40 99.9 0.062 19.8 28693 18.393
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) 1.7 1.76 100 0.28 19.5
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 1DAT 1.7 22.01 27216 1454 99.99 0.17706 0.17567 0.1749 0.20233 0.2022 RANDOM 18.066
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 r_dihedral_angle_2_deg 37.641 r_dihedral_angle_4_deg 19.601 r_sphericity_free 17.082 r_dihedral_angle_3_deg 14.125 r_sphericity_bonded 13.464 r_dihedral_angle_1_deg 4.441 r_scangle_it 3.338 r_scbond_it 2.235 r_mcangle_it 1.277 r_angle_refined_deg 1.161
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.641 r_dihedral_angle_4_deg 19.601 r_sphericity_free 17.082 r_dihedral_angle_3_deg 14.125 r_sphericity_bonded 13.464 r_dihedral_angle_1_deg 4.441 r_scangle_it 3.338 r_scbond_it 2.235 r_mcangle_it 1.277 r_angle_refined_deg 1.161 r_mcbond_it 0.777 r_nbtor_refined 0.303 r_nbd_refined 0.209 r_symmetry_vdw_refined 0.193 r_symmetry_hbond_refined 0.184 r_xyhbond_nbd_refined 0.128 r_chiral_restr 0.09 r_bond_refined_d 0.01 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1497 Nucleic Acid Atoms Solvent Atoms 229 Heterogen Atoms 69
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing