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Structure of Rabbit Actin In Complex With Sphinxolide B
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1QZ5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 293 100mM Na/MES/Acetate, pH 5.5, 12% methyl ether poly(ethylene glycol) 5000, 100mM CaCl2, 1mM TCEP, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.87 37.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.182 α = 90 b = 54.989 β = 92.41 c = 103.52 γ = 90
Symmetry Space Group C 1 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 CCD SBC-2 Rosenbaum-Rock monochromators and mirrors 2004-03-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.9641 APS 19-ID
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 35 99.4 0.079 29.1 4.8 36176 25.9
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 95.1 0.299 3.8 3.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1QZ5 1.7 35 35870 34079 1792 99.37 0.193 0.17511 0.17298 0.1825 0.21347 0.2171 RANDOM 18.5
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] 2.4 -0.15 -0.63 -1.78
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.627 r_scangle_it 3.707 r_scbond_it 2.291 r_angle_other_deg 1.594 r_angle_refined_deg 1.532 r_mcangle_it 1.432 r_mcbond_it 0.761 r_symmetry_hbond_refined 0.338 r_symmetry_vdw_refined 0.292 r_nbd_other 0.243
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.627 r_scangle_it 3.707 r_scbond_it 2.291 r_angle_other_deg 1.594 r_angle_refined_deg 1.532 r_mcangle_it 1.432 r_mcbond_it 0.761 r_symmetry_hbond_refined 0.338 r_symmetry_vdw_refined 0.292 r_nbd_other 0.243 r_symmetry_vdw_other 0.231 r_nbd_refined 0.223 r_xyhbond_nbd_refined 0.18 r_chiral_restr 0.123 r_nbtor_other 0.118 r_metal_ion_refined 0.091 r_bond_refined_d 0.014 r_gen_planes_refined 0.007 r_gen_planes_other 0.005 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2748 Nucleic Acid Atoms Solvent Atoms 314 Heterogen Atoms 100
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling MOLREP phasing