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The 1.5 A Crystal structure of Ca2+-bound S100A4
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MHO PDB ENTRY 1MHO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 9.5 293 40% PEG600, 0.1M CHES, pH9.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.09 41.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.32 α = 90 b = 52.32 β = 90 c = 139.14 γ = 120
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 4 mirrors 2006-09-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-3 0.931 ESRF ID14-3
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 1.5 50 99.5 0.102 9.46 3.75 68764 68427 2
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) 1.5 1.59 98.9 0.448 3.14 3.69 11006
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 PDB ENTRY 1MHO 1.5 45.31 64569 3409 99.68 0.19627 0.19511 0.1926 0.21796 0.2148 RANDOM 16.508
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] 0.54 0.27 0.54 -0.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.424 r_dihedral_angle_3_deg 12.386 r_dihedral_angle_4_deg 8.569 r_dihedral_angle_1_deg 4.014 r_scangle_it 1.75 r_rigid_bond_restr 1.427 r_scbond_it 1.413 r_angle_refined_deg 0.965 r_sphericity_free 0.959 r_sphericity_bonded 0.794
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.424 r_dihedral_angle_3_deg 12.386 r_dihedral_angle_4_deg 8.569 r_dihedral_angle_1_deg 4.014 r_scangle_it 1.75 r_rigid_bond_restr 1.427 r_scbond_it 1.413 r_angle_refined_deg 0.965 r_sphericity_free 0.959 r_sphericity_bonded 0.794 r_mcangle_it 0.783 r_mcbond_it 0.492 r_nbtor_refined 0.299 r_nbd_refined 0.185 r_symmetry_vdw_refined 0.143 r_chiral_restr 0.074 r_metal_ion_refined 0.074 r_xyhbond_nbd_refined 0.071 r_symmetry_hbond_refined 0.068 r_bond_refined_d 0.006 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3254 Nucleic Acid Atoms Solvent Atoms 552 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement MxCuBE data collection XDS data reduction XDS data scaling PHASER phasing