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Crystal structure of the D-arabinose dehydrogenase from Sulfolobus solfataricus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.55 293 4 mg/ml protein, 0.1 M HEPES-NaOH, 10% v/v Jeffamine-600, pH 8.55, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.3 46.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.019 α = 90 b = 84.019 β = 90 c = 194.979 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 IMAGE PLATE MARRESEARCH mirrors 2005-01-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 1.2827 BESSY 14.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.8 50 99.1 12.4 32525 32525
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.86 93 7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1.8 42 30781 30781 1642 98.87 0.19674 0.19674 0.1949 0.2045 0.23216 0.2358 RANDOM 21.344
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] 0.87 0.87 -1.73
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.739 r_dihedral_angle_4_deg 13.943 r_dihedral_angle_3_deg 13.56 r_dihedral_angle_1_deg 9.777 r_scangle_it 5.895 r_scbond_it 4.509 r_mcangle_it 2.51 r_mcbond_it 1.935 r_angle_refined_deg 1.285 r_angle_other_deg 0.903
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.739 r_dihedral_angle_4_deg 13.943 r_dihedral_angle_3_deg 13.56 r_dihedral_angle_1_deg 9.777 r_scangle_it 5.895 r_scbond_it 4.509 r_mcangle_it 2.51 r_mcbond_it 1.935 r_angle_refined_deg 1.285 r_angle_other_deg 0.903 r_mcbond_other 0.548 r_symmetry_vdw_other 0.245 r_nbd_refined 0.199 r_nbd_other 0.185 r_xyhbond_nbd_refined 0.182 r_metal_ion_refined 0.182 r_symmetry_hbond_refined 0.173 r_nbtor_refined 0.17 r_symmetry_vdw_refined 0.143 r_nbtor_other 0.084 r_chiral_restr 0.082 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2412 Nucleic Acid Atoms Solvent Atoms 215 Heterogen Atoms 2
Software Software Software Name Purpose MAR345dtb data collection HKL-2000 data reduction SOLVE phasing REFMAC refinement HKL-2000 data scaling