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Crystal structure of Bacillus subtilis cold shock protein CspB variant A46K S48R
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CSP pdb entry 1CSP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293.15 reservoir solution: 1.5 M lithium sulfate, 0.1 M TRIS pH 7.5, 15% glycerol for cryoprotection. protein solution: 20 mM TRIS pH 7.5, 50 mM NaCl, 3 mM MgCl2, 17.4 mg/ml protein. 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 3.09 60.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.627 α = 90 b = 58.627 β = 90 c = 46.798 γ = 120
Symmetry Space Group P 32 2 1
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 2.22 20 98.319 0.049 26.65 6.7 4700 4621 41.593
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 2.22 2.3 83.3 0.157 7.9 5.4 390
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 (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 1CSP 2.3 19.19 4290 4231 214 98.624 0.205 0.204 0.2139 0.227 0.2502 RANDOM 33.462
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] 2.08 1.04 2.08 -3.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.867 r_scangle_it 2.386 r_angle_other_deg 2.018 r_angle_refined_deg 1.617 r_scbond_it 1.483 r_mcangle_it 1.066 r_mcbond_it 0.582 r_symmetry_vdw_other 0.275 r_nbd_other 0.187 r_symmetry_hbond_refined 0.179
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.867 r_scangle_it 2.386 r_angle_other_deg 2.018 r_angle_refined_deg 1.617 r_scbond_it 1.483 r_mcangle_it 1.066 r_mcbond_it 0.582 r_symmetry_vdw_other 0.275 r_nbd_other 0.187 r_symmetry_hbond_refined 0.179 r_nbd_refined 0.158 r_xyhbond_nbd_refined 0.158 r_nbtor_other 0.083 r_chiral_restr 0.075 r_symmetry_vdw_refined 0.061 r_bond_refined_d 0.015 r_gen_planes_refined 0.009 r_gen_planes_other 0.006 r_bond_other_d 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 521 Nucleic Acid Atoms Solvent Atoms 23 Heterogen Atoms 1
Software Software Software Name Purpose XSCALE data scaling AMoRE phasing REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection XDS data reduction