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Crystal structure of Bacillus subtilis Cold Shock Protein variant Bs-CspB M1R/E3K/K65I
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CSQ pdb entry 1CSQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293.15 protein solution: 20 mM TRIS pH 7.5, 50 mM sodium chloride, 3 mM magnesium chloride, 20.4 mg/ml protein.
crystallization buffer: 25 % PEG 3350, 0.2 M sodium carbonate, 0.1 M TRIS HCl pH 8.5. crystallization setup: 0.8 microliter protein solution:0.8 microliter reservoir solution, VAPOR DIFFUSION, SITTING DROP, temperature 293.15K
Crystal Properties Matthews coefficient Solvent content 2.89 57.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.5 α = 90 b = 55.5 β = 90 c = 55.47 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 CCD MAR CCD 165 mm mirrors 2005-07-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 0.9537 BESSY 14.2
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 2.5 19.2 98.2 0.088 20.14 9.72 3258 3223 49.578
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) 2.5 2.6 98.6 0.58 2.8 9.36 351
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-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 1CSQ 2.55 18.5 3096 3071 134 99.2 0.227 0.227 0.2361 0.244 0.26 RANDOM 49.449
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] 0.67 0.67 -1.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.264 r_dihedral_angle_3_deg 16.89 r_dihedral_angle_4_deg 9.925 r_dihedral_angle_1_deg 5.749 r_scangle_it 5.473 r_scbond_it 4.645 r_mcangle_it 2.868 r_mcbond_it 2.375 r_angle_refined_deg 1.717 r_angle_other_deg 0.927
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.264 r_dihedral_angle_3_deg 16.89 r_dihedral_angle_4_deg 9.925 r_dihedral_angle_1_deg 5.749 r_scangle_it 5.473 r_scbond_it 4.645 r_mcangle_it 2.868 r_mcbond_it 2.375 r_angle_refined_deg 1.717 r_angle_other_deg 0.927 r_mcbond_other 0.312 r_symmetry_vdw_other 0.306 r_nbd_refined 0.216 r_nbd_other 0.215 r_nbtor_refined 0.193 r_symmetry_vdw_refined 0.146 r_xyhbond_nbd_refined 0.139 r_chiral_restr 0.112 r_nbtor_other 0.102 r_symmetry_hbond_refined 0.057 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 527 Nucleic Acid Atoms Solvent Atoms 10 Heterogen Atoms
Software Software Software Name Purpose XSCALE data scaling AMoRE phasing REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection XDS data reduction