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Crystal structure of LokiProfilin1/Rabbit Actin Complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3HBT 3HBT, 5YED experimental model PDB 5YED 3HBT, 5YED
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 291 100 mM Hepes, pH 7.0, 20 % w/v Polyethylene glycol 6,000, 200 mM NaCl, 10 mM ATP disodium salt
Crystal Properties Matthews coefficient Solvent content 2.56 51.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.312 α = 90 b = 126.209 β = 97.89 c = 53.862 γ = 90
Symmetry Space Group P 1 21 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 ADSC QUANTUM 210r 2017-07-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX1 0.9537 Australian Synchrotron MX1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.81 63.1 99.5 11.9 5.4 49614
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 1.81 1.84 78.5 0.692 3.4
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 3HBT, 5YED 1.81 63.1 49614 2561 99.47 0.19422 0.19135 0.1983 0.24864 0.2541 RANDOM 30.492
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] 0.06 -0.01 -0.05 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.505 r_dihedral_angle_4_deg 15.09 r_dihedral_angle_3_deg 15.055 r_dihedral_angle_1_deg 6.699 r_long_range_B_refined 6.673 r_long_range_B_other 6.551 r_scangle_other 4.808 r_mcangle_it 3.42 r_mcangle_other 3.419 r_scbond_it 3.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.505 r_dihedral_angle_4_deg 15.09 r_dihedral_angle_3_deg 15.055 r_dihedral_angle_1_deg 6.699 r_long_range_B_refined 6.673 r_long_range_B_other 6.551 r_scangle_other 4.808 r_mcangle_it 3.42 r_mcangle_other 3.419 r_scbond_it 3.28 r_scbond_other 3.28 r_mcbond_it 2.519 r_mcbond_other 2.519 r_angle_refined_deg 1.943 r_angle_other_deg 1.093 r_chiral_restr 0.119 r_bond_refined_d 0.018 r_gen_planes_refined 0.01 r_bond_other_d 0.003 r_gen_planes_other 0.003 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3837 Nucleic Acid Atoms Solvent Atoms 596 Heterogen Atoms 59
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing