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Crystal structure of the actin-binding domain of human alpha-actinin-4 mutant(K255E)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2EYI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.1 277.15 100 mM Imidazole, 50 mM NaCl, 1 mM EDTA, 5 % (v/v) glycerol, and 21 % (w/v) polyethylene glycol 5000 mono-methyl-ether, pH 7.1, VAPOR DIFFUSION, HANGING DROP, temperature 277.15K
Crystal Properties Matthews coefficient Solvent content 3.06 59.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.697 α = 90 b = 61.533 β = 90 c = 174.936 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 200 CCD ADSC QUANTUM 210 MIRROR 2007-04-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE F2 0.9795 CHESS F2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.2 42.4 100 0.088 0.088 33.8 5.6 25757 25757
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.28 100 0.283 0.283 6.6 3.6 1298
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 2EYI 2.2 42.37 25757 22537 1513 87.5 0.17427 0.17427 0.17142 0.1663 0.22388 0.2173 RANDOM 15.413
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 0.26 -0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.834 r_dihedral_angle_4_deg 18.285 r_dihedral_angle_3_deg 16.234 r_dihedral_angle_1_deg 5.497 r_scangle_it 2.954 r_scbond_it 1.906 r_angle_refined_deg 1.398 r_mcangle_it 1.174 r_mcbond_it 0.758 r_nbtor_refined 0.305
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.834 r_dihedral_angle_4_deg 18.285 r_dihedral_angle_3_deg 16.234 r_dihedral_angle_1_deg 5.497 r_scangle_it 2.954 r_scbond_it 1.906 r_angle_refined_deg 1.398 r_mcangle_it 1.174 r_mcbond_it 0.758 r_nbtor_refined 0.305 r_nbd_refined 0.198 r_symmetry_hbond_refined 0.177 r_xyhbond_nbd_refined 0.157 r_symmetry_vdw_refined 0.154 r_chiral_restr 0.108 r_bond_refined_d 0.014 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3680 Nucleic Acid Atoms Solvent Atoms 457 Heterogen Atoms 24
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling AMoRE phasing