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Crystal structure of human S100B in complex with S45
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2H61 PDB ENTRY 2H61
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.6 298 0.1M sodium acetate, 0.02M calcium chloride, 45% methylpenthanediol, pH4.6, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.21 44.31
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.257 α = 90 b = 57.797 β = 111.41 c = 47.745 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 IMAGE PLATE MAR555 FLAT PANEL 2006-10-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 0.814 EMBL/DESY, HAMBURG X11
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 17.68 81.5 0.041 11.5 4.3 12148 9406 2 29.93
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) 2 2.11 81.5 0.075 9.1 4.1 1337
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) 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 PDB ENTRY 2H61 2 17.63 2 9406 9406 457 81.19 0.23105 0.23105 0.22722 0.2278 0.31149 0.313 RANDOM 33.961
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 36.336 r_dihedral_angle_4_deg 23.357 r_dihedral_angle_3_deg 18.147 r_dihedral_angle_1_deg 5.602 r_scangle_it 3.645 r_scbond_it 2.533 r_angle_refined_deg 1.687 r_mcangle_it 1.678 r_mcbond_it 1.135 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.336 r_dihedral_angle_4_deg 23.357 r_dihedral_angle_3_deg 18.147 r_dihedral_angle_1_deg 5.602 r_scangle_it 3.645 r_scbond_it 2.533 r_angle_refined_deg 1.687 r_mcangle_it 1.678 r_mcbond_it 1.135 r_nbtor_refined 0.306 r_symmetry_vdw_refined 0.279 r_nbd_refined 0.25 r_xyhbond_nbd_refined 0.214 r_symmetry_hbond_refined 0.199 r_metal_ion_refined 0.129 r_chiral_restr 0.115 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1471 Nucleic Acid Atoms Solvent Atoms 96 Heterogen Atoms 44
Software Software Software Name Purpose MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling