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Crystal structure of acetoin utilization protein (ZP_00540088.1) from Exiguobacterium sibiricum 255-15 at 2.33 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 277 NANODROP, 5.7% PEG 8000, 0.2M Calcium acetate, 0.1M Imidazole pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.18 61.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.87 α = 90 b = 128.58 β = 108.43 c = 108.43 γ = 90
Symmetry Space Group P 1 21 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, toroid focusing mirror 2007-03-15 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91162, 0.97936, 0.97925 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 2.33 29.336 88.6 0.052 7.53 73748 -3 50.785
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 2.33 2.41 89.7 0.45 1.4
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2.33 29.336 73722 3696 93.65 0.231 0.229 0.26 0.2897 RANDOM 54.794
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] -1.73 -2.01 -0.88 1.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.894 r_dihedral_angle_3_deg 13.214 r_dihedral_angle_4_deg 13.006 r_dihedral_angle_1_deg 4.297 r_scangle_it 3.074 r_scbond_it 2.312 r_mcangle_it 1.181 r_angle_refined_deg 0.756 r_mcbond_it 0.715 r_angle_other_deg 0.562
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.894 r_dihedral_angle_3_deg 13.214 r_dihedral_angle_4_deg 13.006 r_dihedral_angle_1_deg 4.297 r_scangle_it 3.074 r_scbond_it 2.312 r_mcangle_it 1.181 r_angle_refined_deg 0.756 r_mcbond_it 0.715 r_angle_other_deg 0.562 r_symmetry_vdw_other 0.232 r_xyhbond_nbd_refined 0.202 r_nbd_refined 0.201 r_mcbond_other 0.197 r_nbtor_refined 0.184 r_symmetry_vdw_refined 0.183 r_nbd_other 0.18 r_symmetry_hbond_refined 0.153 r_metal_ion_refined 0.113 r_nbtor_other 0.085 r_xyhbond_nbd_other 0.067 r_chiral_restr 0.066 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9788 Nucleic Acid Atoms Solvent Atoms 240 Heterogen Atoms 51
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 autoSHARP phasing