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Crystal structure of a duf861 family protein with a rmlc-like cupin fold (bb1179) from bordetella bronchiseptica rb50 at 1.60 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.7 277 NANODROP, 0.2M MgAcetate, 20.0% PEG 3350, No Buffer pH 7.7, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.56 51.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.01 α = 90 b = 57 β = 90 c = 101.23 γ = 90
Symmetry Space Group P 21 21 21
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 300 mm CCD Adjustable focusing mirrors in K-B geometry 2007-10-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 0.97939 APS 23-ID-D
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 1.6 27.608 95.7 0.049 10.61 2.84 36782 -3 19.06
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 1.6 1.66 95.5 0.497 1.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 SAD THROUGHOUT 1.6 27.608 36750 1826 98.23 0.169 0.167 0.1728 0.201 0.2054 RANDOM 15.19
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] 0.73 0.29 -1.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.445 r_dihedral_angle_4_deg 11.309 r_dihedral_angle_3_deg 9.937 r_scangle_it 5.121 r_dihedral_angle_1_deg 4.672 r_scbond_it 3.708 r_mcangle_it 2.3 r_mcbond_it 1.812 r_angle_refined_deg 1.708 r_angle_other_deg 1.411
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.445 r_dihedral_angle_4_deg 11.309 r_dihedral_angle_3_deg 9.937 r_scangle_it 5.121 r_dihedral_angle_1_deg 4.672 r_scbond_it 3.708 r_mcangle_it 2.3 r_mcbond_it 1.812 r_angle_refined_deg 1.708 r_angle_other_deg 1.411 r_mcbond_other 0.493 r_symmetry_vdw_other 0.249 r_symmetry_hbond_refined 0.235 r_nbd_refined 0.177 r_nbtor_refined 0.167 r_xyhbond_nbd_refined 0.167 r_nbd_other 0.166 r_chiral_restr 0.103 r_nbtor_other 0.082 r_symmetry_vdw_refined 0.072 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d 0.005 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1808 Nucleic Acid Atoms Solvent Atoms 338 Heterogen Atoms 43
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building XSCALE data scaling PDB_EXTRACT data extraction MAR345 data collection XDS data reduction SHELXD phasing autoSHARP phasing