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Crystal Structure Analysis of the Bacillus Subtilis Cold Shock Protein Bs-CspB in Complex with Hexathymidine
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, HANGING DROP 6.5 293 0.2M calcium acetate
18% (w/v) PEG 8000, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.83 56.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.03 α = 90 b = 53.17 β = 90 c = 76.94 γ = 90
Symmetry Space Group C 2 2 21
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 MARRESEARCH mirrors 2003-10-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.91840 BESSY 14.1
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 1.78 19 98.5 0.065 0.059 12.63 5.6 9870 9870 37.15
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 1.78 2 96.3 96.3 0.426 0.385 3.45 5.5 2830
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 PDB-ENTRY 1CSP 1.78 19 9861 9861 473 99 0.19 0.19 0.189 0.1997 0.223 0.2329 RANDOM 37.563
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] -1.72 4.58 -2.86
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.141 r_dihedral_angle_4_deg 18.103 r_dihedral_angle_3_deg 14.412 r_dihedral_angle_1_deg 5.562 r_scangle_it 4.719 r_scbond_it 4.065 r_mcangle_it 2.642 r_angle_refined_deg 1.894 r_mcbond_it 1.846 r_angle_other_deg 1.083
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.141 r_dihedral_angle_4_deg 18.103 r_dihedral_angle_3_deg 14.412 r_dihedral_angle_1_deg 5.562 r_scangle_it 4.719 r_scbond_it 4.065 r_mcangle_it 2.642 r_angle_refined_deg 1.894 r_mcbond_it 1.846 r_angle_other_deg 1.083 r_mcbond_other 0.563 r_symmetry_vdw_other 0.255 r_symmetry_vdw_refined 0.244 r_nbd_refined 0.227 r_metal_ion_refined 0.207 r_xyhbond_nbd_refined 0.187 r_nbd_other 0.177 r_symmetry_hbond_refined 0.16 r_chiral_restr 0.107 r_nbtor_other 0.095 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 511 Nucleic Acid Atoms 101 Solvent Atoms 63 Heterogen Atoms 2
Software Software Software Name Purpose XSCALE data scaling AMoRE phasing REFMAC refinement PDB_EXTRACT data extraction XDS data reduction