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Crystal structure of a duf849 family protein (bxe_c0271) from burkholderia xenovorans lb400 at 1.90 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 277 1.0000M K/Na Tartrate, 0.1M MES pH 6.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.89 57.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 103.837 α = 90 b = 103.837 β = 90 c = 128.969 γ = 120
Symmetry Space Group P 62 2 2
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, toroid focusing mirror 2008-07-16 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91162,0.97934,0.97892 SSRL BL9-2
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 1.9 29.198 99.5 0.107 0.107 7.1 32785 22.755
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 1.9 1.95 99.7 0.625 0.625 1 7.2 2391
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 MAD THROUGHOUT 1.9 29.198 32757 1663 99.31 0.16 0.158 0.1642 0.181 0.1865 RANDOM 29.295
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] 0.16 0.08 0.16 -0.25
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.508 r_dihedral_angle_4_deg 11.465 r_dihedral_angle_3_deg 10.441 r_scangle_it 4.608 r_dihedral_angle_1_deg 4.117 r_scbond_it 3.279 r_angle_refined_deg 1.617 r_mcangle_it 1.546 r_angle_other_deg 1.402 r_mcbond_it 1.063
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.508 r_dihedral_angle_4_deg 11.465 r_dihedral_angle_3_deg 10.441 r_scangle_it 4.608 r_dihedral_angle_1_deg 4.117 r_scbond_it 3.279 r_angle_refined_deg 1.617 r_mcangle_it 1.546 r_angle_other_deg 1.402 r_mcbond_it 1.063 r_nbd_refined 0.181 r_mcbond_other 0.165 r_nbtor_refined 0.156 r_symmetry_vdw_refined 0.155 r_nbd_other 0.146 r_symmetry_vdw_other 0.14 r_symmetry_hbond_refined 0.127 r_chiral_restr 0.099 r_xyhbond_nbd_refined 0.091 r_nbtor_other 0.072 r_bond_refined_d 0.013 r_gen_planes_refined 0.005 r_bond_other_d 0.004 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2379 Nucleic Acid Atoms Solvent Atoms 311 Heterogen Atoms 41
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction SHELXD phasing autoSHARP phasing