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Structure of the Cro protein from prophage Pfl 6 in Pseudomonas fluorescens Pf-5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9.5 298 primary precipitating solution: 2.2M ammonium sulfate, 0.1M tris
additional chemicals in drop: 2mM dithiothreitol, 0.2mM EDTA, 0.01% sodium azide, pH 9.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.02 38.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.94 α = 90 b = 40.94 β = 90 c = 123.5 γ = 120
Symmetry Space Group P 31 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 100 CCD MARMOSAIC 325 mm CCD flat collimating mirror
double crystal monochromator
toroid focusing mirror 2005-07-21 M MAD 2 1 3 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.97935,0.97921,0.91165 SSRL BL9-2
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 1.7 34.08 98.1 0.055 13.5 4.84 13741 13741 39.3
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 1.7 1.76 90.7 0.434 3 4.28 1222
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.7 34.08 13741 13741 677 98.09 0.221 0.221 0.218 0.271 0.2773 RANDOM 24.302
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] 0.76 0.38 0.76 -1.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.48 r_dihedral_angle_4_deg 23.688 r_dihedral_angle_3_deg 15.701 r_dihedral_angle_1_deg 6.084 r_scangle_it 3.522 r_scbond_it 2.517 r_angle_refined_deg 1.855 r_mcangle_it 1.586 r_mcbond_it 1.197 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.48 r_dihedral_angle_4_deg 23.688 r_dihedral_angle_3_deg 15.701 r_dihedral_angle_1_deg 6.084 r_scangle_it 3.522 r_scbond_it 2.517 r_angle_refined_deg 1.855 r_mcangle_it 1.586 r_mcbond_it 1.197 r_nbtor_refined 0.306 r_nbd_refined 0.224 r_symmetry_vdw_refined 0.193 r_symmetry_hbond_refined 0.185 r_xyhbond_nbd_refined 0.157 r_chiral_restr 0.127 r_bond_refined_d 0.021 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 907 Nucleic Acid Atoms Solvent Atoms 61 Heterogen Atoms 32
Software Software Software Name Purpose d*TREK data scaling SOLVE phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction Blu-Ice data collection CrystalClear data reduction CrystalClear data scaling