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Crystal structure of an Iron-containing alcohol dehydrogenase (Sden_2133) from Shewanella denitrificans OS-217 at 2.12 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.9 277 0.300M calcium chloride, 26.00% polyethylene glycol 400, 0.1M HEPES pH 7.9, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 121.074 α = 90 b = 121.074 β = 90 c = 275.666 γ = 90
Symmetry Space Group I 41 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 2009-11-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 SSRL BL9-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.12 29.947 100 0.166 8.1 7.4 58332 58332 33.086
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 2.12 2.18 100 1.388 1.388 1.6 7.5 4226
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 2.12 29.947 58283 2951 99.92 0.1826 0.1819 0.1927 0.1968 0.2 RANDOM 38.9231
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] 1.28 1.28 -2.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.185 r_dihedral_angle_4_deg 23.458 r_dihedral_angle_3_deg 13.581 r_dihedral_angle_1_deg 5.623 r_scangle_it 3.103 r_scbond_it 2.091 r_angle_refined_deg 1.411 r_mcangle_it 1.332 r_angle_other_deg 0.909 r_mcbond_it 0.699
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.185 r_dihedral_angle_4_deg 23.458 r_dihedral_angle_3_deg 13.581 r_dihedral_angle_1_deg 5.623 r_scangle_it 3.103 r_scbond_it 2.091 r_angle_refined_deg 1.411 r_mcangle_it 1.332 r_angle_other_deg 0.909 r_mcbond_it 0.699 r_mcbond_other 0.135 r_chiral_restr 0.075 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2787 Nucleic Acid Atoms Solvent Atoms 357 Heterogen Atoms 83
Software Software Software Name Purpose MolProbity model building PDB_EXTRACT data extraction SHELX phasing SHARP phasing SCALA data scaling REFMAC refinement MOSFLM data reduction SHELXD phasing