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2-keto-3-deoxygluconate(KDG) aldolase of Sulfolobus solfataricus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other MAD PHASED STRUCTURE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6 0.1M HEPES PH6, 13%PEG4000, 8% ISOPROPANOL, pH 6.00
Crystal Properties Matthews coefficient Solvent content 2.8 55.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.577 α = 90 b = 131.553 β = 90 c = 132.556 γ = 90
Symmetry Space Group P 21 21 21
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 R-AXIS OSMIC 2003-07-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007
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 32 99.1 0.05 10.8 3 98295 2 18.58
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 2.1 99.1 0.16 4.6 2.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MAD PHASED STRUCTURE 2 95.35 88470 9825 99.1 0.158 0.153 0.1567 0.202 0.2034 RANDOM 20
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] -0.437 0.672 -0.235
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.527 r_scangle_it 5.057 r_scbond_it 3.085 r_angle_refined_deg 1.73 r_mcangle_it 1.711 r_mcbond_it 0.996 r_nbtor_refined 0.315 r_nbd_refined 0.215 r_symmetry_vdw_refined 0.211 r_symmetry_hbond_refined 0.18
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.527 r_scangle_it 5.057 r_scbond_it 3.085 r_angle_refined_deg 1.73 r_mcangle_it 1.711 r_mcbond_it 0.996 r_nbtor_refined 0.315 r_nbd_refined 0.215 r_symmetry_vdw_refined 0.211 r_symmetry_hbond_refined 0.18 r_xyhbond_nbd_refined 0.162 r_chiral_restr 0.126 r_bond_refined_d 0.023 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9302 Nucleic Acid Atoms Solvent Atoms 901 Heterogen Atoms 49
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling