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2.1A crystal structure of glucose/ribitol dehydrogenase from brucella melitensis (p43212)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8.5 289 45% MPD, 0.1M TRIS pH 8.5, 0.2M AMMONIUM ACETATE, VAPOR DIFFUSION, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.31 46.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 119.5 α = 90 b = 119.5 β = 90 c = 136 γ = 90
Symmetry Space Group P 43 21 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 SATURN 944 MULTI-LAYER OPTICS MIRRORS 2008-09-23 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
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 2.1 99.8 0.1 57871 -3 31.3
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) 2.1 2.15 100 0.481 6.2
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 MOLECULAR REPLACEMENT THROUGHOUT 2.1 57869 2938 99.81 0.19 0.188 0.1876 0.23 0.2297 RANDOM 24.884
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] -0.29 -0.29 0.58
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.654 r_dihedral_angle_4_deg 19.497 r_dihedral_angle_3_deg 17.508 r_dihedral_angle_1_deg 5.595 r_scangle_it 3.038 r_scbond_it 1.862 r_angle_refined_deg 1.369 r_mcangle_it 1.184 r_mcbond_it 0.693 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.654 r_dihedral_angle_4_deg 19.497 r_dihedral_angle_3_deg 17.508 r_dihedral_angle_1_deg 5.595 r_scangle_it 3.038 r_scbond_it 1.862 r_angle_refined_deg 1.369 r_mcangle_it 1.184 r_mcbond_it 0.693 r_nbtor_refined 0.306 r_nbd_refined 0.21 r_symmetry_hbond_refined 0.192 r_symmetry_vdw_refined 0.19 r_xyhbond_nbd_refined 0.138 r_chiral_restr 0.101 r_bond_refined_d 0.011 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7066 Nucleic Acid Atoms Solvent Atoms 359 Heterogen Atoms
Software Software Software Name Purpose XSCALE data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction